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David B. Dusenbery Selection for High Gamete Encounter
Rates Explains the Success of Male and
Female Mating Types . . . . . . . . . . 1--10
Yutaka Kobayashi and
Norio Yamamura Evolution of Seed Dormancy Due to Sib
Competition: Effect of Dispersal and
Inbreeding . . . . . . . . . . . . . . . 11--24
Jon D. Pelletier Model Assessments of the Optimal Design
of Nature Reserves for Maximizing
Species Longevity . . . . . . . . . . . 25--32
James H.-C. Wang Substrate Deformation Determines Actin
Cytoskeleton Reorganization: a
Mathematical Modeling and Experimental
Study . . . . . . . . . . . . . . . . . 33--41
Igor Rojdestvenski and
Michael G. Cottam Mapping of Statistical Physics to
Information Theory with Application to
Biological Systems . . . . . . . . . . . 43--54
Richard Green and
E. B. Keverne The Disparate Maternal Aunt--Uncle Ratio
in Male Transsexuals: an Explanation
Invoking Genomic Imprinting . . . . . . 55--63
Jonathan C. K. Wells Natural Selection and Sex Differences in
Morbidity and Mortality in Early Life 65--76
Leighton Pritchard and
Mark J. Dufton Do Proteins Learn to Evolve? The
Hopfield Network as a Basis for the
Understanding of Protein Evolution . . . 77--86
Kevin R. Anderson and
Neil H. Mendelson and
Joseph C. Watkins A New Mathematical Approach Predicts
Individual Cell Growth Behavior using
Bacterial Population Information . . . . 87--94
Anonymous Pages 1--94 (7 January 2000) . . . . . . ??
M. J. Holmes and
B. D. Sleeman A Mathematical Model of Tumour
Angiogenesis Incorporating Cellular
Traction and Viscoelastic Effects . . . 95--112
Hans H. Diebner and
Martin Eichner and
Louis Molineaux and
William E. Collins and
Geoffrey M. Jeffery and
Klaus Dietz Modelling the Transition of Asexual
Blood Stages of \bionamePlasmodium
falciparum to Gametocytes . . . . . . . 113--127
Jean Lehmann Physico-chemical Constraints Connected
with the Coding Properties of the
Genetic System . . . . . . . . . . . . . 129--144
Axel Kowald and
Thomas B. L. Kirkwood Accumulation of Defective Mitochondria
through Delayed Degradation of Damaged
Organelles and Its Possible Role in the
Ageing of Post-mitotic and Dividing
Cells . . . . . . . . . . . . . . . . . 145--160
Sean A. Rands and
Alasdair I. Houston and
Catherine E. Gasson Prey Processing in Central Place
Foragers . . . . . . . . . . . . . . . . 161--174
T. Lesnik and
J. Solomovici and
A. Deana and
R. Ehrlich and
C. Reiss Ribosome Traffic in \bionameE. coli and
Regulation of Gene Expression . . . . . 175--185
Anonymous Pages 95--185 (21 January 2000) . . . . ??
Anonymous ANNOUNCEMENT: Digital Object Identifier i--i
L. Valandro and
B. Salvato and
R. Caimmi and
L. Galzigna Isomorphism of Quasispecies and
Percolation Models . . . . . . . . . . . 187--194
Wayne P. Maddison Testing Character Correlation using
Pairwise Comparisons on a Phylogeny . . 195--204
Jin-Sheng Wang and
Tetsuya Araki and
Masayoshi Matsuoka and
Takahira Ogawa A Model of Photoinhibition Related to
mRNA Instability in Ethylene Production
by a Recombinant Cyanobacterium . . . . 205--211
P. D. Powell and
J. C. Demartini and
P. Azari and
L. A. Stargell and
L. Cordain and
A. Tucker Evolutionary Stable Strategy: a Test for
Theories of Retroviral Pathology which
are Based upon the Concept of Molecular
Mimicry . . . . . . . . . . . . . . . . 213--229
James N. Mcnair Turbulent Transport of Suspended
Particles and Dispersing Benthic
Organisms: The Hitting-time Distribution
for the Local Exchange Model . . . . . . 231--246
Anonymous Pages 187--246 (7 February 2000) . . . . ??
Pierre-André Cornillon and
Dominique Pontier and
Marie-Joëlle Rochet Autoregressive Models for Estimating
Phylogenetic and Environmental Effects:
Accounting for Within-species Variations 247--256
Brigitte Tenhumberg and
Andrew J. Tyre and
Bernie Roitberg Stochastic Variation in Food
Availability Influences Weight and Age
at Maturity . . . . . . . . . . . . . . 257--272
Nikolay V. Dokholyan and
Sergey V. Buldyrev and
Shlomo Havlin and
H. Eugene Stanley Distributions of Dimeric Tandem Repeats
in Non-coding and Coding DNA Sequences 273--282
Steven A. Frank Specific and Non-specific Defense
against Parasitic Attack . . . . . . . . 283--304
Agnieszka Gierlik and
Maria Kowalczuk and
Pawe\l Mackiewicz and
Miros\law R. Dudek and
Stanis\law Cebrat Is there Replication-associated
Mutational Pressure in the Saccharomyces
cerevisiae Genome? . . . . . . . . . . . 305--314
Anonymous Pages 247--314 (21 February 2000) . . . ??
Patrick A. Riley Tyrosinase Kinetics: a Semi-quantitative
Model of the Mechanism of Oxidation of
Monohydric and Dihydric Phenolic
Substrates . . . . . . . . . . . . . . . 1--12
John Tschirhart General Equilibrium of an Ecosystem . . 13--32
Rampal S. Etienne and
J. A. P. Heesterbeek On Optimal Size and Number of Reserves
for Metapopulation Persistence . . . . . 33--50
Matt J. Keeling and
Bryan T. Grenfell Individual-based Perspectives on $ R_0 $ 51--61
Anonymous Pages 1--61 (7 March 2000) . . . . . . . ??
Akiko Satake and
Yoh Iwasa Pollen Coupling of Forest Trees: Forming
Synchronized and Periodic Reproduction
out of Chaos . . . . . . . . . . . . . . 63--84
Yoshihiro Haraguchi and
Akira Sasaki The Evolution of Parasite Virulence and
Transmission Rate in a Spatially
Structured Population . . . . . . . . . 85--96
F. Seebacher Heat Transfer in a Microvascular
Network: the Effect of Heart Rate on
Heating and Cooling in Reptiles
(\bionamePogona barbata and
\bionameVaranus varius) . . . . . . . . 97--109
Richard H. Thornhill and
David W. Ussery A Classification of Possible Routes of
Darwinian Evolution . . . . . . . . . . 111--116
Joshua L. Cherry and
Frederick R. Adler How to make a Biological Switch . . . . 117--133
Ezequiel A. Di Paolo Ecological Symmetry Breaking can Favour
the Evolution of Altruism in an
Action-response Game . . . . . . . . . . 135--152
Jeff Hersh Mathematical Analysis of the Relative
Contributions of Decreased Production
and Increased Peripheral Destruction in
Idiopathic Thrombocytopenic Purpura and
Implications in Splenectomy . . . . . . 153--162
Günter P. Wagner and
Jason Mezey Modeling the Evolution of Genetic
Architecture: a Continuum of Alleles
Model with Pairwise A$ \times $A
Epistasis . . . . . . . . . . . . . . . 163--175
K. Iwata and
K. Kawasaki and
N. Shigesada A Dynamical Model for the Growth and
Size Distribution of Multiple Metastatic
Tumors . . . . . . . . . . . . . . . . . 177--186
Anonymous ERRATUM . . . . . . . . . . . . . . . . 187--187
Anonymous Pages 63--187 (21 March 2000) . . . . . ??
Samuel J. Landry Helper T-cell Epitope Immunodominance
Associated with Structurally Stable
Segments of Hen Egg Lysozyme and HIV
gp120 . . . . . . . . . . . . . . . . . 189--201
Massimo Di Giulio The Universal Ancestor Lived in a
Thermophilic or Hyperthermophilic
Environment . . . . . . . . . . . . . . 203--213
Haruhiko Ishii A Statistical-Mechanical Model for
Regulation of Long-range Chromatin
Structure and Gene Expression . . . . . 215--228
Christophe H. Schilling and
David Letscher and
Bernhard Ò. Palsson Theory for the Systemic Definition of
Metabolic Pathways and their use in
Interpreting Metabolic Function from a
Pathway-Oriented Perspective . . . . . . 229--248
Christophe H. Schilling and
Bernhard Ò. Palsson Assessment of the Metabolic Capabilities
of \bionameHaemophilus influenzae Rd
through a Genome-scale Pathway Analysis 249--283
Max A. Stafford and
Lawrence Corey and
Yunzhen Cao and
Eric S. Daar and
David D. Ho and
Alan S. Perelson Modeling Plasma Virus Concentration
during Primary HIV Infection . . . . . . 285--301
Bernard Derrida and
Susanna C. Manrubia and
Damián H. Zanette On the Genealogy of a Population of
Biparental Individuals . . . . . . . . . 303--315
Anonymous Pages 189--315 (7 April 2000) . . . . . ??
P. Hogeweg Evolving Mechanisms of Morphogenesis: on
the Interplay between Differential
Adhesion and Cell Differentiation . . . 317--333
David P. Kraines and
Vivian Y. Kraines Natural Selection of Memory-one
Strategies for the Iterated Prisoner's
Dilemma . . . . . . . . . . . . . . . . 335--355
N. A. Hill and
L. A. Plumpton Control Strategies for the Polarotactic
Orientation of the Microorganism Euglena
gracilis . . . . . . . . . . . . . . . . 357--365
A. R. Kansal and
S. Torquato and
G. R. Harsh and
E. A. Chiocca and
T. S. Deisboeck Simulated Brain Tumor Growth Dynamics
Using a Three-Dimensional Cellular
Automaton . . . . . . . . . . . . . . . 367--382
Buyong Ma and
Sandeep Kumar and
Chung-Jung Tsai and
Zengjian Hu and
Ruth Nussinov Transition-state Ensemble in Enzyme
Catalysis: Possibility, Reality, or
Necessity? . . . . . . . . . . . . . . . 383--397
L. H. A. Monteiro and
C. H. O. Gonçalves and
J. R. C. Piqueira A Condition for Successful Escape of a
Mutant after Primary HIV Infection . . . 399--406
Peter D. Munro and
Craig M. Jackson and
Donald J. Winzor Consequences of the Non-specific Binding
of a Protein to a Linear Polymer:
Reconciliation of Stoichiometric and
Equilibrium Titration Data for the
Thrombin--Heparin Interaction . . . . . 407--418
Christopher F. Taylor and
Paul G. Higgs A Population Genetics Model for Multiple
Quantitative Traits Exhibiting
Pleiotropy and Epistasis . . . . . . . . 419--437
Kouji Harada and
Takashi Ikegami Evolution of Specificity in an Immune
Network . . . . . . . . . . . . . . . . 439--449
J. E. I. Hokkanen Chaotic or Periodic Variation? Looking
at Crustacea Hearts . . . . . . . . . . 451--454
Anonymous Pages 317--454 (21 April 2000) . . . . . ??
D. J. T. Sumpter and
D. S. Broomhead Shape and Dynamics of Thermoregulating
Honey Bee Clusters . . . . . . . . . . . 1--14
André R. O. Cavalcanti and
Benício De Barros Neto and
Ricardo Ferreira On the Classes of Aminoacyl-tRNA
Synthetases and the Error Minimization
in the Genetic Code . . . . . . . . . . 15--20
Rubin R. Aliev and
William Richards and
John P. Wikswo A Simple Nonlinear Model of Electrical
Activity in the Intestine . . . . . . . 21--28
Alfredo Colosimo and
Aldo De Luca Special Factors in Biological Strings 29--46
Peter P. Thumfort and
David B. Layzell and
Craig A. Atkins A Simplified Approach for Modeling
Diffusion into Cells . . . . . . . . . . 47--65
George I. Zahalak The Two-state Cross-bridge Model of
Muscle is an Asymptotic Limit of
Multi-state Models . . . . . . . . . . . 67--82
John K. Kelly and
Michael J. Wade Molecular Evolution near a Two-locus
Balanced Polymorphism . . . . . . . . . 83--101
Yves Chapron and
Jean-Michel Peyrin and
Serge Crouzy and
Alexandre Jaegly and
Dominique Dormont Theoretical Analysis of the Implication
of PrP in Neuronal Death during
Transmissible Subacute Spongiform
Encephalopathies: Hypothesis of a PrP
Oligomeric Channel . . . . . . . . . . . 103--111
S. Kranenbarg and
M. Muller and
J. L. W. Gielen and
J. H. G. Verhagen Physical Constraints on Body Size in
Teleost Embryos . . . . . . . . . . . . 113--133
B. R. Pittendrigh and
P. Gaffney and
L. L. Murdock Deterministic Modeling of Negative
Cross-resistance Strategies for use in
Transgenic Host-plant Resistance . . . . 135--150
Anonymous International Conference on Mathematics
in Biology and Annual Meeting of the
Society for Mathematical Biology ``SMB
2000'' . . . . . . . . . . . . . . . . . 151--151
Anonymous Pages 1--151 (7 May 2000) . . . . . . . ??
Jordi Bascompte and
Miguel A. Rodríguez Self-disturbance as a Source of
Spatiotemporal Heterogeneity: the Case
of the Tallgrass Prairie . . . . . . . . 153--164
Junko Fujita-Yoshigaki Simulation of Regulated Exocytosis of
Amylase from Salivary Parotid Acinar
Cells by a Consecutive Reaction Model
Comprising Two Sequential First-order
Reactions . . . . . . . . . . . . . . . 165--177
Martin A. Nowak The Basic Reproductive Ratio of a Word,
the Maximum Size of a Lexicon . . . . . 179--189
Tao Yi and
Sabin Lessard and
Mathieu Lemire Evolutionarily Stable Strategy in a Sex-
and Frequency-Dependent Selection Model 191--200
Philip D. Gingerich Arithmetic or Geometric Normality of
Biological Variation: an Empirical Test
of Theory . . . . . . . . . . . . . . . 201--221
Melissa D. Cox and
Guy B. Blanchard Gaseous Templates in Ant Nests . . . . . 223--238
Christopher M. Topham and
Sheraz Gul and
Marina Resmini and
Sanjiv Sonkaria and
Gerrard Gallacher and
Keith Brocklehurst The Kinetic Basis of a General Method
for the Investigation of Active Site
Content of Enzymes and Catalytic
Antibodies: First-Order Behaviour under
Single-turnover and Cycling Conditions 239--256
C. A. Cobbold and
J. A. Sherratt Mathematical Modelling of Nitric Oxide
Activity in Wound Healing can explain
Keloid and Hypertrophic Scarring . . . . 257--288
Tomás A. Revilla Resource Competition in Stage-structured
Populations . . . . . . . . . . . . . . 289--298
J. C. K. Wells Environmental Temperature and Human
Growth in Early Life . . . . . . . . . . 299--305
Wade Hazel and
Richard Smock Inheritance in the Conditional Strategy
Revisited . . . . . . . . . . . . . . . 307--309
Anonymous Pages 153--309 (21 May 2000) . . . . . . ??
Luis Mendoza and
Elena R. Alvarez-Buylla Genetic Regulation of Root Hair
Development in Arabidopsis Thaliana: a
Network Model . . . . . . . . . . . . . 311--326
Hiroshi Hakoyama and
Yoh Iwasa and
Junko Nakanishi Comparing Risk Factors for Population
Extinction . . . . . . . . . . . . . . . 327--336
Hiroshi Hakoyama and
Yoh Iwasa Extinction Risk of a Density-dependent
Population Estimated from a Time Series
of Population Size . . . . . . . . . . . 337--359
Zoe V. Finkel and
Andrew J. Irwin Modeling Size-dependent Photosynthesis:
Light Absorption and the Allometric Rule 361--369
Kuo-Chu Chang and
Tong-J Chen and
Ying-I Peng and
Te-Hei Li and
Yung-Zu Tseng Impaired Vascular Dynamics in
Normotensive Diabetic Rats Induced by
Streptozotocin: Tapered T-tube Model
Analysis . . . . . . . . . . . . . . . . 371--380
Olivier Thoumine and
Jean-Jacques Meister A Probabilistic Model for
Ligand-Cytoskeleton Transmembrane
Adhesion: Predicting the Behavior of
Microspheres on the Surface of Migrating
Cells . . . . . . . . . . . . . . . . . 381--392
Peter Boderke and
Klaus Schittkowski and
Manfred Wolf and
Hans P. Merkle Modeling of Diffusion and Concurrent
Metabolism in Cutaneous Tissue . . . . . 393--407
Duncan Roy Learning and the Theory of Games . . . . 409--414
James A. Powell and
Katharina A. M. Engelhardt Optimal Trajectories for the
Short-Distance Foraging Flights of Swans 415--430
Ramy A. Arnaout and
Martin A. Nowak Competitive Coexistence in Antiviral
Immunity . . . . . . . . . . . . . . . . 431--441
D. R. Forsdyke Haldane's Rule: Hybrid Sterility Affects
the Heterogametic Sex First because
Sexual Differentiation is on the Path to
Species Differentiation . . . . . . . . 443--452
Fengmin Ji and
Liaofu Luo A Hypercycle Theory of Proliferation of
Viruses and Resistance to the Viruses of
Transgenic Plant . . . . . . . . . . . . 453--465
Barbara Drossel and
Alan Mckane Competitive Speciation in Quantitative
Genetic Models . . . . . . . . . . . . . 467--478
Anonymous Pages 311--478 (7 June 2000) . . . . . . ??
Anonymous Editorial Policy . . . . . . . . . . . . 479--480
Joshua Mitteldorf and
David Sloan Wilson Population Viscosity and the Evolution
of Altruism . . . . . . . . . . . . . . 481--496
Billi Goldberg and
Raphael B. Stricker Bridging the Gap: Human Diploid Cell
Strains and the Origin of AIDS . . . . . 497--503
Caroline Haurie and
David C. Dale and
Ryszard Rudnicki and
Michael C. Mackey Modeling Complex Neutrophil Dynamics in
the Grey Collie . . . . . . . . . . . . 505--519
Michael V. Martinov and
Victor M. Vitvitsky and
Eugene V. Mosharov and
Ruma Banerjee and
Fazoil I. Ataullakhanov A Substrate Switch: a New Mode of
Regulation in the Methionine Metabolic
Pathway . . . . . . . . . . . . . . . . 521--532
Arthur L. Koch Length Distribution of the Peptidoglycan
Chains in the Sacculus of
\bionameEscherichia coli . . . . . . . . 533--541
Philip H. Crowley Hawks, Doves, and Mixed-symmetry Games 543--563
Martín A. Lema and
Diego A. Golombek and
Julián Echave Delay Model of the Circadian Pacemaker 565--573
J. P. Whiteley and
D. J. Gavaghan and
C. E. W. Hahn The Effect of Inspired Oxygen
Concentration on the
Ventilation--Perfusion Distribution in
Inhomogeneous Lungs . . . . . . . . . . 575--585
Alessandro Bertuzzi and
Alberto Gandolfi Cell Kinetics in a Tumour Cord . . . . . 587--599
James Powell and
Bruce Kennedy and
Peter White and
Barbara Bentz and
Jesse Logan and
David Roberts Mathematical Elements of Attack Risk
Analysis for Mountain Pine Beetles . . . 601--620
James R. Thompson Is the United States Country Zero for
the First-World AIDS Epidemic? . . . . . 621--628
M. Möhle Ancestral Processes in Population
Genetics-the Coalescent . . . . . . . . 629--638
Horst Malchow Motional Instabilities in Prey--Predator
Systems . . . . . . . . . . . . . . . . 639--647
Anonymous Pages 479--647 (21 June 2000) . . . . . ??
David W. Stephens Cumulative Benefit Games: Achieving
Cooperation when Players Discount the
Future . . . . . . . . . . . . . . . . . 1--16
Christopher J. Rennie and
James J. Wright and
Peter A. Robinson Mechanisms of Cortical Electrical
Activity and Emergence of Gamma Rhythm 17--35
F. Saffre and
A.-C. Mailleux and
J. L. Deneubourg Exploratory Recruitment Plasticity in a
Social Spider (\bionameAnelosimus
eximius) . . . . . . . . . . . . . . . . 37--46
M. Argentina and
P. Coullet and
V. Krinsky Head-on Collisions of Waves in an
Excitable FitzHugh--Nagumo System: a
Transition from Wave Annihilation to
Classical Wave Behavior . . . . . . . . 47--52
Karen M. Vereecken and
Els J. Dens and
Jan F. Van Impe Predictive Modeling of Mixed Microbial
Populations in Food Products: Evaluation
of Two-species Models . . . . . . . . . 53--72
F. A. Davidson and
S. Olsson Translocation Induced Outgrowth of Fungi
in Nutrient-free Environments . . . . . 73--84
Jordi Lleonart and
Jordi Salat and
Gabriel J. Torres Removing Allometric Effects of Body Size
in Morphological Analysis . . . . . . . 85--93
Thomas P. Weber and
Anders Hedenström Optimal Stopover Decisions under Wind
Influence: the Effects of Correlated
Winds . . . . . . . . . . . . . . . . . 95--104
Nikolai A. Provorov and
Nikolai I. Vorobyov Population Genetics of Rhizobia:
Construction and Analysis of an
``Infection and Release'' Model . . . . 105--119
Hans-Rolf Gregorius Adaptation to Spatially Heterogeneous
Modifying and Adaptive Environments . . 121--131
Hans G. Wallraff Simulated Navigation Based on Observed
Gradients of Atmospheric Trace Gases
(Models on Pigeon Homing, Part 3) . . . 133--145
Joshua B. Plotkin and
Martin A. Nowak Language Evolution and Information
Theory . . . . . . . . . . . . . . . . . 147--159
Miguel Toro A Comment on Sex Ratio with Intrasex
Sibling Cooperation . . . . . . . . . . 161--164
E. D. Williams and
G. T. Williams Cancer, Somatic Mutation and Stem Cells 165--166
Takashi Kunisawa Functional Role of Mycobacteriophage
Transfer RNAs . . . . . . . . . . . . . 167--170
Anonymous Pages 1--170 (7 July 2000) . . . . . . . ??
H. R. Hirsch and
X. Liu and
T. M. Witten Mortality-rate Crossovers and Maximum
Lifespan in Advantaged and Disadvantaged
Populations: Accelerated-mortality and
Sudden-death Models . . . . . . . . . . 171--180
Jennifer S. Enns-Ruttan and
Robert M. Miura Spontaneous Secondary Spiking in
Excitable Cells . . . . . . . . . . . . 181--199
Rick Durrett and
Simon Levin Lessons on Pattern Formation from Planet
WATOR . . . . . . . . . . . . . . . . . 201--214
Kimberly E. Forsten and
Michael Fannon and
Matthew A. Nugent Potential Mechanisms for the Regulation
of Growth Factor Binding by Heparin . . 215--230
L. E. Alcaráz and
S. E. Blanco and
O. N. Puig and
F. Tomás and
F. H. Ferretti Antibacterial Activity of Flavonoids
Against Methicillin-resistant
Staphylococcus aureus strains . . . . . 231--240
Lynda Fletcher and
Elizabeth Mcfarlane and
Keith Fletcher and
Paul A. A. Grant and
Iain C. Campbell A Mathematical Model for Assessing
Changes in Neurofilament Protein Levels
in Neurites and Cell Bodies of
Differentiating Neuroblastoma Cells . . 241--252
Yutaka Kobayashi and
Kihachiro Kikuzawa A Single Theory Explains Two Empirical
Laws Applicable to Plant Populations . . 253--260
Hong Qian and
James B. Bassingthwaighte A Class of Flow Bifurcation Models with
Lognormal Distribution and Fractal
Dispersion . . . . . . . . . . . . . . . 261--268
Matt J. Keeling Multiplicative Moments and Measures of
Persistence in Ecology . . . . . . . . . 269--281
Emmanuelle Porcher and
Marino Gatto Quantifying the Dynamics of Prion
Infection: a Bifurcation Analysis of
Laurent's Model . . . . . . . . . . . . 283--296
Kenneth J. Broadley and
Paul H. J. Nederkoorn and
Henk Timmerman and
David Timms and
Robin H. Davies The Ligand-Receptor-G-Protein Ternary
Complex as a GTP-Synthase. Steady-State
Proton Pumping and Dose-Response
Relationships for $ \beta
$-Adrenoceptors . . . . . . . . . . . . 297--320
Marc R. Roussel and
Didier Gonze and
Albert Goldbeter Modeling the Differential Fitness of
Cyanobacterial Strains whose Circadian
Oscillators have Different Free-running
Periods: Comparing the Mutual Inhibition
and Substrate Depletion Hypotheses . . . 321--340
Anonymous ERRATUM . . . . . . . . . . . . . . . . 341--341
Anonymous Pages 171--341 (21 July 2000) . . . . . ??
Jorge Cubo Process Heterochronies in Endochondral
Ossification . . . . . . . . . . . . . . 343--353
Sumanas Wanant and
Michael J. Quon Insulin Receptor Binding Kinetics:
Modeling and Simulation Studies . . . . 355--364
Thomas R. Hagedorn and
Laura F. Landweber Phylogenetic Invariants and Geometry . . 365--376
D. M. Lewis and
T. J. Pedley Planktonic Contact Rates in Homogeneous
Isotropic Turbulence: Theoretical
Predictions and Kinematic Simulations 377--408
Christian V. Forst Molecular Evolution of Catalysis . . . . 409--431
Jordi Delgado and
Ricard V. Solé Self-synchronization and Task Fulfilment
in Ant Colonies . . . . . . . . . . . . 433--441
David K. Chelvanayagam Interpreting the Distortion Associated
with a Retinal Wholemount . . . . . . . 443--455
William D. Stanbro Modeling the Interaction of
Peroxynitrite with Low-density
Lipoproteins. I. Plasma Levels of
Peroxynitrite . . . . . . . . . . . . . 457--464
William D. Stanbro Modeling the Interaction of
Peroxynitrite with Low-density
Lipoproteins. II: Reaction/Diffusion
Model of Peroxynitrite in Low-density
Lipoprotein Particles . . . . . . . . . 465--471
William D. Stanbro Modeling the Interaction of
Peroxynitrite with Low-density
Lipoproteins. III: The Role of
Antioxidants . . . . . . . . . . . . . . 473--482
Gregory L. Moore and
Costas D. Maranas Modeling DNA Mutation and Recombination
for Directed Evolution Experiments . . . 483--503
Michel Kerszberg and
Lewis Wolpert A Clock and Trail Model for Somite
Formation, Specialization and
Polarization . . . . . . . . . . . . . . 505--510
Simcha Lev-Yadun Whirled Grain in Wood and Topological
Defects . . . . . . . . . . . . . . . . 511--514
Anonymous Pages 343--514 (7 August 2000) . . . . . ??
Melissa Savage and
Bruce Sawhill and
Manor Askenazi Community Dynamics: What Happens When We
Rerun the Tape? . . . . . . . . . . . . 515--526
Norman A. Johnson and
Adam H. Porter Rapid Speciation via Parallel,
Directional Selection on Regulatory
Genetic Pathways . . . . . . . . . . . . 527--542
Nicholas V. Hud and
Frank A. L. Anet Intercalation-Mediated Synthesis and
Replication: a New Approach to the
Origin of Life . . . . . . . . . . . . . 543--562
Jesús Alberto León and
José Renato De Nóbrega Comparative Statics of Joint
Reproductive Allocation . . . . . . . . 563--579
Charles A. Abella and
Volodymyr N. Ivanov and
In S. Kim Number of Triplets in 16S rRNA Gene
Related with Pathogenicity of
\bionameBacillus spp. and
\bionameClostridium spp. . . . . . . . . 581--586
Isaac Salazar-Ciudad and
Jordi Garcia-Fernández and
Ricard V. Solé Gene Networks Capable of Pattern
Formation: From Induction to
Reaction--Diffusion . . . . . . . . . . 587--603
John M. Mcnamara and
Tamás Székely and
James N. Webb and
Alasdair I. Houston A Dynamic Game-theoretic Model of
Parental Care . . . . . . . . . . . . . 605--623
Marco Archetti The Origin of Autumn Colours by
Coevolution . . . . . . . . . . . . . . 625--630
Zong-Ling Wang and
Jing-Guang Zhang and
Xin-Min Liu Competition and Coexistence in Spatially
Subdivided Habitats . . . . . . . . . . 631--639
Laurence D. Hurst and
James P. Randerson Dosage, Deletions and Dominance: Simple
Models of the Evolution of Gene
Expression . . . . . . . . . . . . . . . 641--647
Steinar Engen and
Bernt-Erik Sæther Predicting the Time to Quasi-extinction
for Populations far below their Carrying
Capacity . . . . . . . . . . . . . . . . 649--658
Massimo Di Giulio Genetic Code Origin and the Strength of
Natural Selection . . . . . . . . . . . 659--661
Karl Javorszky Interaction between Sequences and
Mixtures . . . . . . . . . . . . . . . . 663--666
Anonymous Pages 515--666 (21 August 2000) . . . . ??
Lloyd Demetrius Thermodynamics and Evolution . . . . . . 1--16
Tao Yi and
Sabin Lessard Fundamental Theorem of Natural Selection
and Frequency-dependent Selection:
Analysis of the Matrix Game Diploid
Model . . . . . . . . . . . . . . . . . 17--25
Benjamin B. Braunheim and
Steven D. Schwartz Neural Network Methods for
Identification and Optimization of
Quantum Mechanical Features Needed for
Bioactivity . . . . . . . . . . . . . . 27--45
Jason M. Erickson and
Anthony R. Mawson Possible Role of Endogenous Retinoid
(Vitamin A) Toxicity in the
Pathophysiology of Primary Biliary
Cirrhosis . . . . . . . . . . . . . . . 47--54
M. J. Gagen Information Processing in Multigame
Environments Modeling the Evolution of
Sex via Punctuated Equilibria . . . . . 55--72
Lars Gårding A Simple Model for the Interplay of
Predators, Rodents and Food . . . . . . 73--80
Michel Kerszberg The Survival of Slow Reproducers . . . . 81--89
W. Konrad and
A. Roth-Nebelsick and
H. Kerp and
H. Hass Transpiration and Assimilation of Early
Devonian Land Plants with Axially
Symmetric Telomes --- Simulations on the
Tissue Level . . . . . . . . . . . . . . 91--107
Timothy M. Lenton and
James E. Lovelock Daisyworld is Darwinian: Constraints on
Adaptation are Important for Planetary
Self-Regulation . . . . . . . . . . . . 109--114
Alex Braiman and
Vladimir Gold'shtein and
Zvi Priel Feasibility of a Sustained Steep
Ca$^{2+}$ Gradient in the Cytosol of
Electrically Non-excitable Cells . . . . 115--130
T. Johansson and
P. Meier and
R. Blickhan A Finite-Element Model for the
Mechanical Analysis of Skeletal Muscles 131--149
Vladimir I. Kalinin System-theoretical (Holistic) Approach
to the Modelling of
Structural-Functional Relationships of
Biomolecules and Their Evolution: an
Example of Triterpene Glycosides from
Sea Cucumbers (\bionameEchinodermata,
Holothurioidea) . . . . . . . . . . . . 151--168
Anonymous Pages 1--168 (7 September 2000) . . . . ??
Herbert Gintis Strong Reciprocity and Human Sociality 169--179
Daniel Goldman and
Aleksander S. Popel A Computational Study of the Effect of
Capillary Network Anastomoses and
Tortuosity on Oxygen Transport . . . . . 181--194
Arjen Van Ooyen and
David J. Willshaw Development of Nerve Connections under
the Control of Neurotrophic Factors:
Parallels with Consumer-Resource Systems
in Population Biology . . . . . . . . . 195--210
Peter T. Saunders and
Johan H. Koeslag and
Jabus A. Wessels Integral Rein Control in Physiology II:
a General Model . . . . . . . . . . . . 211--220
Graeme C. Hays The Implications of Variable Remigration
Intervals for the Assessment of
Population Size in Marine Turtles . . . 221--227
István Scheuring Habitat Diversity and Stability in a
Metapopulation . . . . . . . . . . . . . 229--233
R. Cassia-Moura and
A. Popescu and
J. R. S. A. Lima and
C. A. S. Andrade and
L. S Ventura and
K. S. A. Lima and
J. Rinzel The Dynamic Activation of Colicin Ia
Channels in Planar Bilayer Lipid
Membrane . . . . . . . . . . . . . . . . 235--241
Naoaki Ono and
Takashi Ikegami Self-maintenance and Self-reproduction
in an Abstract Cell Model . . . . . . . 243--253
Tylis Y. Chang Towards a Quantitative Model of
Immunogenicity: Counting Pathways in
Sequence Space . . . . . . . . . . . . . 255--278
Steven A. Frank Within-host Spatial Dynamics of Viruses
and Defective Interfering Particles . . 279--290
Jocelyn A. Laurence and
Peter W. French and
Robyn A. Lindner and
David R. McKenzie Biological Effects of Electromagnetic
Fields --- Mechanisms for the Effects of
Pulsed Microwave Radiation on Protein
Conformation . . . . . . . . . . . . . . 291--298
David Taylor Scaling Effects in the Fatigue Strength
of Bones from Different Animals . . . . 299--306
C. Alff-Steinberger A comparative Study of Mutations in
\bionameEscherichia coli and Salmonella
typhimurium shows that Codon
Conservation is Strongly Correlated with
Codon Usage . . . . . . . . . . . . . . 307--311
M. Feughelman and
B. K. Willis Thiol-disulfide Interchange a Potential
Key to Conformational Change Associated
with Amyloid Fibril Formation . . . . . 313--315
Reiner Veitia and
Chris Ottolenghi Placing Parallel Stranded DNA in an
Evolutionary Context . . . . . . . . . . 317--322
Anonymous Pages 169--322 (21 September 2000) . . . ??
Guy Dodin and
Pierre Vandergheynst and
Patrick Levoir and
Christine Cordier and
Laurence Marcourt Fourier and Wavelet Transform Analysis,
a Tool for Visualizing Regular Patterns
in DNA Sequences . . . . . . . . . . . . 323--326
Juan P. Aparicio and
Angel F. Capurro and
Carlos Castillo-Chavez Transmission and Dynamics of
Tuberculosis on Generalized Households 327--341
Wamberto A. Varanda and
Larry S. Liebovitch and
José N. Figueiroa and
Romildo A. Nogueira Hurst Analysis Applied to the Study of
Single Calcium-activated Potassium
Channel Kinetics . . . . . . . . . . . . 343--353
John W. Pepper Relatedness in Trait Group Models of
Social Evolution . . . . . . . . . . . . 355--368
Nicholas C. Grassly and
Arndt Von Haeseler and
David C. Krakauer Error, Population Structure and the
Origin of Diverse Sign Systems . . . . . 369--378
Olaf Weiss and
Miguel A. Jiménez-Montaño and
Hanspeter Herzel Information Content of Protein Sequences 379--386
Ayowumi Fatade and
Jerry Snowhite and
Michael E. Green A Resonance Model gives the Response to
Membrane Potential for an Ion Channel:
II. Simplification of the Calculation,
and Prediction of Stochastic Resonance 387--393
Paul R. Shorten and
A. Bruce Robson and
Alan E. Mckinnon and
David J. N. Wall CRH-induced Electrical Activity and
Calcium Signalling in Pituitary
Corticotrophs . . . . . . . . . . . . . 395--405
Ivan V. Surovtsev and
Ivan A. Razumov and
Vyacheslav M. Nekrasov and
Alexander N. Shvalov and
Juhani T. Soini and
Valeri P. Maltsev and
Alexander K. Petrov and
Valeri B. Loktev and
Andrei V. Chernyshev Mathematical Modeling the Kinetics of
Cell Distribution in the Process of
Ligand--Receptor Binding . . . . . . . . 407--417
V. Sitaramam and
Zuben E. Sauna What does a Common Channel for
Electrolytes and Non-electrolytes in the
Sperm Mean? . . . . . . . . . . . . . . 419--428
A. Rachev and
E. Manoach and
J. Berry and
J. E. Moore A Model of Stress-induced Geometrical
Remodeling of Vessel Segments Adjacent
to Stents and Artery/Graft Anastomoses 429--443
William H. James The Hypothesized Hormonal Control of
Offspring Sex Ratio: Evidence from
Families Ascertained by Schizophrenia
and Epilepsy . . . . . . . . . . . . . . 445--447
Anonymous Pages 323--447 (7 October 2000) . . . . ??
Barry Mcleod and
Nigel Burroughs Defective Deletion Mutant Amplification 449--464
Guy Sella and
Michael Lachmann On the Dynamic Persistence of
Cooperation: How Lower Individual
Fitness Induces Higher Survivability . . 465--485
M. A. Ball and
G. A. Parker Sperm Competition Games: a Comparison of
Loaded Raffle Models and their
Biological Implications . . . . . . . . 487--506
Dariusz Latowski and
Kvetoslava Burda and
Kazimierz Strzalka A Mathematical Model Describing Kinetics
of Conversion of Violaxanthin to
Zeaxanthin via Intermediate
Antheraxanthin by the Xanthophyll Cycle
Enzyme Violaxanthin De-epoxidase . . . . 507--514
G. A. Oda and
I. L. Caldas and
J. R. C. Piqueira and
J. M. Waterhouse and
M. D. Marques Coupled Biological Oscillators in a Cave
Insect . . . . . . . . . . . . . . . . . 515--524
Dirk Holste and
Ivo Grosse and
Sergey V. Buldyrev and
H. Eugene Stanley and
Hanspeter Herzel Optimization of Coding Potentials Using
Positional Dependence of Nucleotide
Frequencies . . . . . . . . . . . . . . 525--537
Andrew Yates and
Claudia Bergmann and
J. Leo Van Hemmen and
Jaroslav Stark and
Robin Callard Cytokine-modulated Regulation of Helper
T Cell Populations . . . . . . . . . . . 539--560
Klaus Lange Microvillar Ion Channels: Cytoskeletal
Modulation of Ion Fluxes . . . . . . . . 561--584
Moisés Santillán and
Joseph M. Mahaffy and
Jacques Bélair and
Michael C. Mackey Regulation of Platelet Production: The
Normal Response to Perturbation and
Cyclical Platelet Disease . . . . . . . 585--603
Brian Topp and
Keith Promislow and
Gerda Devries and
Robert M. Miura and
Diane T. Finegood A Model of $ \beta $-Cell Mass, Insulin,
and Glucose Kinetics: Pathways to
Diabetes . . . . . . . . . . . . . . . . 605--619
Anonymous Pages 449--619 (21 October 2000) . . . . ??
Carola Tralau and
Gerhard Greller and
Markus Pajatsch and
Winfried Boos and
Erich Bohl Mathematical Treatment of Transport Data
of Bacterial Transport Systems to
Estimate Limitation in Diffusion through
the Outer Membrane . . . . . . . . . . . 1--14
George C. Theodoridis On Selection Mechanisms during Initial
Evolution and on the Possible Role of
Ionic Balance . . . . . . . . . . . . . 15--20
Guy Beauchamp Learning Rules for Social Foragers:
Implications for the Producer--Scrounger
Game and Ideal Free Distribution Theory 21--35
John K. Kelly and
Scott Williamson Predicting Response to Selection on a
Quantitative Trait: a Comparison between
Models for Mixed-mating Populations . . 37--56
Maria Luisa Da Silva and
José Roberto C. Piqueira and
Jacques M. E. Vielliard Using Shannon Entropy on Measuring the
Individual Variability in the
Rufous-bellied Thrush \bionameTurdus
rufiventris Vocal Communication . . . . 57--64
Becca Asquith and
Charles R. M. Bangham The Role of Cytotoxic T Lymphocytes in
Human T-cell Lymphotropic Virus Type 1
Infection . . . . . . . . . . . . . . . 65--79
Joshua B. Plotkin and
Matthew D. Potts and
Nandi Leslie and
N. Manokaran and
James Lafrankie and
Peter S. Ashton Species-area Curves, Spatial
Aggregation, and Habitat Specialization
in Tropical Forests . . . . . . . . . . 81--99
Andrea Peluso and
Mariangela Di Donato and
Roberto Improta and
Gloria Anna Ada Saracino A Plausible Mechanism of Electron
Transfer between Quinones in
Photosynthetic Reaction Centers . . . . 101--105
Frederick W. Cummings A Model of Pattern Formation Based on
Signaling Pathways . . . . . . . . . . . 107--116
David B. Fogel and
Hans-Georg Beyer Do Evolutionary Processes Minimize
Expected Losses? . . . . . . . . . . . . 117--123
J. S. Edwards and
B. O. Palsson Multiple Steady States in Kinetic Models
of Red Cell Metabolism . . . . . . . . . 125--127
Anonymous Pages 1--127 (7 November 2000) . . . . . ??
Paul F. Pinsky A Multi-stage Model of Adenoma
Development . . . . . . . . . . . . . . 129--143
Xiping Bi and
Dixie J. Goss Kinetic Proofreading Scanning Models for
Eukaryotic Translational Initiation: the
Cap and Poly(A) Tail Dependency of
Translation . . . . . . . . . . . . . . 145--157
Josiane Courteau and
Sabin Lessard Optimal Sex Ratios in Structured
Populations . . . . . . . . . . . . . . 159--175
Lu Tsai and
Liaofu Luo A Statistical Mechanical Model for
Predicting B-DNA Curvature and
Flexibility . . . . . . . . . . . . . . 177--194
André J. Noest Designing Lymphocyte Functional
Structure for Optimal Signal Detection:
Voil\`a, T cells . . . . . . . . . . . . 195--216
F. D. L. Kelpin and
M. A. Kirkilionis and
B. W. Kooi Numerical Methods and Parameter
Estimation of a Structured Population
Model with Discrete Events in the Life
History . . . . . . . . . . . . . . . . 217--230
Kalet León and
Rolando Peréz and
Agustin Lage and
Jorge Carneiro Modelling T-cell-Mediated Suppression
Dependent on Interactions in
Multicellular Conjugates . . . . . . . . 231--254
Alexey D. Gruzdev DNA Topology in Heterochromatin (a
Hypothesis) . . . . . . . . . . . . . . 255--264
Luis Acerenza Design of Large Metabolic Responses.
Constraints and Sensitivity Analysis . . 265--282
Henrik Mouritsen and
Ole Mouritsen A Mathematical Expectation Model for
Bird Navigation based on the
Clock-and-Compass Strategy . . . . . . . 283--291
Christopher B. Scott Energy Expenditure of Heavy to Severe
Exercise and Recovery . . . . . . . . . 293--297
Anonymous Pages 129--297 (21 November 2000) . . . ??
Mitchell B. Baker and
Amos Zemel Josef Bertrand Catches Some Ants:
Unbiased Random Trajectories for the
Simulation of Position Effects in Groups 299--303
J. R. Collier and
D. Mcinerney and
S. Schnell and
P. K. Maini and
D. J. Gavaghan and
P. Houston and
C. D. Stern A Cell Cycle Model for Somitogenesis:
Mathematical Formulation and Numerical
Simulation . . . . . . . . . . . . . . . 305--316
P. Boily and
P. H. Kvadsheim and
L. P. Folkow Cutaneous Heat Flux Models do not
Reliably Predict Metabolic Rates of
Marine Mammals . . . . . . . . . . . . . 317--323
David R. Powell and
Lloyd Allison and
Trevor I. Dix Fast, Optimal Alignment of Three
Sequences Using Linear Gap Costs . . . . 325--336
Isabelle Chuine A Unified Model for Budburst of Trees 337--347
Leah P. Macfadyen Regulation of Competence Development in
Haemophilus influenzae: Proposed
Competence Regulatory Elements are
CRP-Binding Sites . . . . . . . . . . . 349--359
Iva Marija Toli\'c and
Erik Mosekilde and
Jeppe Sturis Modeling the Insulin--Glucose Feedback
System: The Significance of Pulsatile
Insulin Secretion . . . . . . . . . . . 361--375
Janica Ylikarjula and
Susanna Alaja and
Jouni Laakso and
David Tesar Effects of Patch Number and Dispersal
Patterns on Population Dynamics and
Synchrony . . . . . . . . . . . . . . . 377--387
M. Broom and
C. Cannings and
G. T. Vickers A Sequential-Arrivals Model of Territory
Acquisition II . . . . . . . . . . . . . 389--403
J. Barilla and
M. Lokajícek The Role of Oxygen in DNA Damage by
Ionizing Particles . . . . . . . . . . . 405--414
Robert H. Dillon and
Lisa J. Fauci An Integrative Model of Internal Axoneme
Mechanics and External Fluid Dynamics in
Ciliary Beating . . . . . . . . . . . . 415--430
A. R. Kansal and
S. Torquato and
E. A. Chiocca and
T. S. Deisboeck Emergence of a Subpopulation in a
Computational Model of Tumor Growth . . 431--441
Anonymous The 6th International Conference on
Mathematical Population Dynamics 3--8
June 2001 Marrakech, Morocco . . . . . . 443--443
Anonymous Pages 299--443 (7 December 2000) . . . . ??
David Gall and
Erika Baus and
Genevi\`eve Dupont Activation of the Liver Glycogen
Phosphorylase by Ca$^{2+}$ Oscillations:
a Theoretical Study . . . . . . . . . . 445--454
David Elder Split Gene Origin and Periodic Introns 455--472
Mads Kærn and
Michael Menzinger and
Axel Hunding Segmentation and Somitogenesis Derived
from Phase Dynamics in Growing
Oscillatory Media . . . . . . . . . . . 473--493
Thomas F. Hansen and
Ashley J. R. Carter and
Chi-Hua Chiu Gene Conversion may aid Adaptive Peak
Shifts . . . . . . . . . . . . . . . . . 495--511
Gerda De Vries and
Arthur Sherman Channel Sharing in Pancreatic $ \beta
$-Cells Revisited: Enhancement of
Emergent Bursting by Noise . . . . . . . 513--530
Harold B. Dowse and
Steven Norton and
Bruce D. Sidell The Estimation of the Diffusion Constant
and Solubility of O$_2$ in Tissue Using
Kinetics . . . . . . . . . . . . . . . . 531--541
Takuyo Aita and
Yuzuru Husimi Theory of Evolutionary Molecular
Engineering through Simultaneous
Accumulation of Advantageous Mutations 543--556
Ricardo Murphy Some Compartmental Models of the Root:
Steady-state Behavior . . . . . . . . . 557--576
Leonard Hayflick and
Stanley Plotkin Bridging the Gap --- a Reply . . . . . . 577--578
Anonymous Pages 445--578 (21 December 2000) . . . ??
S. Cossy Isasi and
G. J. Sibona and
C. A. Condat A Simple Model for the Interaction
Between \bionameT. cruzi and its
Antibodies During Chagas Infection . . . 1--13
Shigui Ruan Oscillations in Plankton Models with
Nutrient Recycling . . . . . . . . . . . 15--26
Michael H. F. Wilkinson Predation in the Presence of Decoys: An
Inhibitory Factor on Pathogen Control by
Bacteriophages or Bdellovibrios in Dense
and Diverse Ecosystems . . . . . . . . . 27--36
Robert J. H. Payne and
Vincent A. A. Jansen Understanding Bacteriophage Therapy as a
Density-dependent Kinetic Process . . . 37--48
B. R. Frieden and
A. Plastino and
B. H. Soffer Population Genetics from an Information
Perspective . . . . . . . . . . . . . . 49--64
Ziding Zhang and
Zhi-Rong Sun and
Chun-Ting Zhang A New Approach to Predict the
Helix/Strand Content of Globular
Proteins . . . . . . . . . . . . . . . . 65--78
Joseph Henrich and
Robert Boyd Why People Punish Defectors: Weak
Conformist Transmission can Stabilize
Costly Enforcement of Norms in
Cooperative Dilemmas . . . . . . . . . . 79--89
Barbara Drossel and
Paul G. Higgs and
Alan J. Mckane The Influence of Predator--Prey
Population Dynamics on the Long-term
Evolution of Food Web Structure . . . . 91--107
Karina Yusim and
Shlomo Nir and
Noam Lahav A Model for Proto-tRNA Loading . . . . . 109--116
Shmuel Assouline and
Shlomo Nir and
Noam Lahav Simulation of Non-enzymatic
Template-directed Synthesis of
Oligonucleotides and Peptides . . . . . 117--125
Anonymous Pages 1--125 (7 January 2001) . . . . . ??
G. R. Spedding and
C. J. Pennycuick Uncertainty Calculations for Theoretical
Flight Power Curves . . . . . . . . . . 127--139
Massimo Di Giulio The Origin of the Genetic Code cannot be
Studied using Measurements based on the
PAM Matrix because this Matrix Reflects
the Code Itself, Making any such
Analyses Tautologous . . . . . . . . . . 141--144
Axel Dietrich and
Willem Been Memory and DNA . . . . . . . . . . . . . 145--149
Gerhard Gierz and
Salomon Bartnicki-Garcia A Three-Dimensional Model of Fungal
Morphogenesis Based on the Vesicle
Supply Center Concept . . . . . . . . . 151--164
Henrique M. Pereira and
Deborah M. Gordon A Trade-off in Task Allocation between
Sensitivity to the Environment and
Response Time . . . . . . . . . . . . . 165--184
G. Chiorino and
J. A. J. Metz and
D. Tomasoni and
P. Ubezio Desynchronization Rate in Cell
Populations: Mathematical Modeling and
Experimental Data . . . . . . . . . . . 185--199
Snæbjörn Pálsson The Effects of Deleterious Mutations in
Cyclically Parthenogenetic Organisms . . 201--214
Richard H. Clayton and
Andrew Bailey and
Vadim N. Biktashev and
Arun V. Holden Re-entrant Cardiac Arrhythmias in
Computational Models of Long QT
Myocardium . . . . . . . . . . . . . . . 215--225
James M. Hyman and
Jia Li and
E. Ann Stanley The Initialization and Sensitivity of
Multigroup Models for the Transmission
of HIV . . . . . . . . . . . . . . . . . 227--249
Anonymous Pages 127--249 (21 January 2001) . . . . ??
G. L. Alonso and
D. A. González and
D. Takara and
M. A. Ostuni and
G. A. Sánchez Kinetic Analysis of a Model of the
Sarcoplasmic Reticulum Ca-ATPase, with
Variable Stoichiometry, which Enhances
the Amount and the Rate of Ca Transport 251--260
Jan-Hendrik S. Hofmeyr and
Hans V. Westerhoff Building the Cellular Puzzle: Control in
Multi-level Reaction Networks . . . . . 261--285
Iwajlo M. Kandjov Heat and Water Rate Transfer Processes
in the Human Respiratory Tract at
Various Altitudes . . . . . . . . . . . 287--293
Silke Thoms and
Markus Pahlow and
Dieter A. Wolf-Gladrow Model of the Carbon Concentrating
Mechanism in Chloroplasts of Eukaryotic
Algae . . . . . . . . . . . . . . . . . 295--313
Steven V. Viscido and
Matthew Miller and
David S. Wethey The Response of a Selfish Herd to an
Attack from Outside the Group Perimeter 315--328
J. Trommershäuser and
S. Titz and
B. U. Keller and
A. Zippelius Variability of Excitatory Currents due
to Single-Channel Noise, Receptor Number
and Morphological Heterogeneity . . . . 329--343
David B. Dusenbery Performance of Basic Strategies for
following Gradients in Two Dimensions 345--360
Jay E. Mittenthal and
Bertrand Clarke and
Thomas G. Waddell and
Glenn Fawcett A New Method for Assembling Metabolic
Networks, with Application to the Krebs
Citric Acid Cycle . . . . . . . . . . . 361--382
Subhendu Ghosh and
Amal K. Bera The Role of H$^+$ Concentration on the
Capacitance of a Membrane Channel
Protein . . . . . . . . . . . . . . . . 383--384
David Ratel and
Sylvie Boisseau and
Valéry Nasser and
François Berger and
Didier Wion Programmed Cell Death or Cell Death
Programme? That is the Question . . . . 385--386
Anonymous Pages 251--386 (7 February 2001) . . . . ??
Eric M. Kramer A Mathematical Model of Auxin-mediated
Radial Growth in Trees . . . . . . . . . 387--397
Stephen Cooper Revisiting the Relationship of the
Mammalian G1 Phase to Cell
Differentiation . . . . . . . . . . . . 399--402
Peter J. Woolf and
Terry P. Kenakin and
Jennifer J. Linderman Uncovering Biases in High Throughput
Screens of G-Protein Coupled Receptors 403--418
Karen M. Page and
Philip K. Maini and
Nicholas A. M. Monk and
Claudio D. Stern A Model of Primitive Streak Initiation
in the Chick Embryo . . . . . . . . . . 419--438
Mirko Wagner and
Jens Timmer Model Selection in Non-nested Hidden
Markov Models for Ion Channel Gating . . 439--450
D. C. Sanyal and
N. K. Maji Thermoregulation through Skin under
Variable Atmospheric and Physiological
Conditions . . . . . . . . . . . . . . . 451--456
Ilan Eshel and
Avner Shaked Partnership . . . . . . . . . . . . . . 457--474
A. D. Cristillo and
J. R. Mortimer and
I. H. Barrette and
T. P. Lillicrap and
D. R. Forsdyke Double-stranded RNA as a Not-self Alarm
Signal: to Evade, most Viruses
Purine-load their RNAs, but some
(HTLV-1, Epstein--Barr) Pyrimidine-load 475--491
Brian D. Fath and
Bernard C. Patten and
Jae S. Choi Complementarity of Ecological Goal
Functions . . . . . . . . . . . . . . . 493--506
Lilach Hadany A Conflict Between Two Evolutionary
Levels in Trees . . . . . . . . . . . . 507--521
Anonymous Pages 387--521 (21 February 2001) . . . ??
William H. James A Prediction on the Sex Ratios of
Piglets . . . . . . . . . . . . . . . . 1--2
T. Marique and
J. Wérenne Control of 92 kDa Collagenase Secretion
in Mammalian Cells by Modulation of AP-1
Activity: an Experimentally based
Theoretical Study . . . . . . . . . . . 3--8
P. S. Dodds and
D. H. Rothman and
J. S. Weitz Re-examination of the ``3/4-law'' of
Metabolism . . . . . . . . . . . . . . . 9--27
Peter Ruoff and
Merete Vinsjevik and
Christian Monnerjahn and
Ludger Rensing The Goodwin Model: Simulating the Effect
of Light Pulses on the Circadian
Sporulation Rhythm of Neurospora Crassa 29--42
Natalia L. Komarova and
Partha Niyogi and
Martin A. Nowak The Evolutionary Dynamics of Grammar
Acquisition . . . . . . . . . . . . . . 43--59
Jianfeng Feng and
Guibin Li and
David Brown and
Hilary Buxton Balance between Four Types of Synaptic
Input for the Integrate-and-Fire Model 61--73
Rebecca F. Furlong and
John F. Y. Brookfield Inference of Past Population Expansion
from the Timing of Coalescence Events in
a Gene Genealogy . . . . . . . . . . . . 75--86
Michael A. Fishman and
Arnon Lotem and
Lewi Stone Heterogeneity Stabilizes Reciprocal
Altruism Interactions . . . . . . . . . 87--95
William H. James Hypothesis: Gonadal Hormones Act as
Confounders in Epidemiological Studies
of the Associations between Some
Behavioural Risk Factors and Some
Pathological Conditions . . . . . . . . 97--102
Dean A. Fennell and
Finbarr E. Cotter A Dynamical Systems Model to Simulate
the Perturbation Kinetics of Gene
Expression by Antisense Oligonucleotides 103--112
Louise Kold Andersen and
Michael C. Mackey Resonance in Periodic Chemotherapy: a
Case Study of Acute Myelogenous Leukemia 113--130
Anonymous Pages 1--130 (7 March 2001) . . . . . . ??
Richard M. Kliman and
Bryan T. Rogers and
Mohamed A. F. Noor Differences in (G+C) Content between
Species: a Commentary on Forsdyke's
``Chromosomal Viewpoint'' of Speciation 131--140
João Carlos Marques Magalhães and
Décio Krause Suppes Predicate for Genetics and
Natural Selection . . . . . . . . . . . 141--153
P. D. Powell and
J. C. Demartini Retroviral Antibody Binding of the MHC
Class II Molecule: a Biochemical
Influence on CD4 T Cell Differentiation
in HIV Infection? . . . . . . . . . . . 155--160
R. S. Cantrell and
Chris Cosner Spatial Heterogeneity and Critical Patch
Size: Area Effects via Diffusion in
Closed Environments . . . . . . . . . . 161--171
Karen M. Page and
Martin A. Nowak A Generalized Adaptive Dynamics
Framework can Describe the Evolutionary
Ultimatum Game . . . . . . . . . . . . . 173--179
Masayuki Nashimoto The RNA/Protein Symmetry Hypothesis:
Experimental Support for Reverse
Translation of Primitive Proteins . . . 181--187
Daniel Goldman and
Aleksander S. Popel A Computational Study of the Effect of
Vasomotion on Oxygen Transport from
Capillary Networks . . . . . . . . . . . 189--199
B. S. Jones and
W. F. Lynn and
M. O. Stone Thermal Modeling of Snake Infrared
Reception: Evidence for Limited
Detection Range . . . . . . . . . . . . 201--211
Kazuhiro Aoki and
Mitsuru Furusawa Promotion of Evolution by Intracellular
Coexistence of Mutator and Normal DNA
Polymerases . . . . . . . . . . . . . . 213--222
Jose-Leonel Torres Biological Power Laws and Darwin's
Principle . . . . . . . . . . . . . . . 223--232
Emi Shudo and
Yoh Iwasa Inducible Defense against Pathogens and
Parasites: Optimal Choice among Multiple
Options . . . . . . . . . . . . . . . . 233--247
Sidharth Jaggi and
Amitabh Joshi Incorporating Spatial Variation in
Density Enhances the Stability of Simple
Population Dynamics Models . . . . . . . 249--255
Anonymous Pages 131--255 (21 March 2001) . . . . . ??
Jaap A. Kaandorp and
Peter M. A. Sloot Morphological Models of Radiate
Accretive Growth and the Influence of
Hydrodynamics . . . . . . . . . . . . . 257--274
Bernard Korzeniewski Cybernetic Formulation of the Definition
of Life . . . . . . . . . . . . . . . . 275--286
Ryusuke Kon and
Yasuhiro Takeuchi The Effect of Evolution on
Host-Parasitoid Systems . . . . . . . . 287--302
V. A. Karasev and
V. E. Stefanov Topological Nature of the Genetic Code 303--317
Thomas Alerstam Detours in Bird Migration . . . . . . . 319--331
Priyanga Amarasekare and
Hugh Possingham Patch Dynamics and Metapopulation
Theory: the Case of Successional Species 333--344
Massimo Di Giulio The Non-universality of the Genetic
Code: the Universal Ancestor was a
Progenote . . . . . . . . . . . . . . . 345--349
James N. Mcnair and
J. Denis Newbold Turbulent Transport of Suspended
Particles and Dispersing Benthic
Organisms: the Hitting-distance Problem
for the Local Exchange Model . . . . . . 351--369
Andrew R. Solow A Comment on Two Models of the
Remigration Interval in Marine Turtles 371--372
Jordi Bascompte Aggregate Statistical Measures and
Metapopulation Dynamics . . . . . . . . 373--379
Anonymous ANNOUNCEMENT . . . . . . . . . . . . . . 381--381
Anonymous Pages 257--381 (7 April 2001) . . . . . ??
Wang Zhi and
Zhao Ming and
Yu Qi-Xing Modeling of Branching Structures of
Plants . . . . . . . . . . . . . . . . . 383--394
Chikara Furusawa and
Kunihiko Kaneko Theory of Robustness of Irreversible
Differentiation in a Stem Cell System:
Chaos Hypothesis . . . . . . . . . . . . 395--416
Aaron B. Watts and
Hasu Patel The Theory and Application of Transition
State $ p K_a $ Values: The Reaction of
Papain with a Series of Trimethylene
Disulphide Reactivity Probes . . . . . . 417--429
J. P. Whiteley and
D. J. Gavaghan and
C. E. W. Hahn Modelling Inert Gas Exchange in Tissue
and Mixed-Venous Blood Return to the
Lungs . . . . . . . . . . . . . . . . . 431--443
John E. A. Bertram and
Andy Ruina Multiple Walking Speed-frequency
Relations are Predicted by Constrained
Optimization . . . . . . . . . . . . . . 445--453
Annie Jonsson and
Bo Ebenman Are Certain Life Histories Particularly
Prone to Local Extinction? . . . . . . . 455--463
H. A. Van Den Berg and
D. A. Rand and
N. J. Burroughs A Reliable and Safe T Cell Repertoire
based on Low-affinity T Cell Receptors 465--486
Daniel J. Lacks Regressive Biological Evolution due to
Environmental Change . . . . . . . . . . 487--491
Christopher Hayes Hypothesis: Hemimelia and the
Maintenance of Pentadactyly? . . . . . . 493--495
Tomoyuki Miura and
Pierre Sonigo A Mathematical Model for Experimental
Gene Evolution . . . . . . . . . . . . . 497--502
Anonymous ESMTB Summer School: Biology and
Mathematics of Cells: Physiology,
Kinetics and Evolution . . . . . . . . . 503--503
Anonymous Pages 383--503 (21 April 2001) . . . . . ??
Ken Binmore and
Larry Samuelson Can Mixed Strategies be Stable in
Asymmetric Games? . . . . . . . . . . . 1--14
L. Judas and
M. Lokajícek Cell Inactivation by Ionizing Particles
and the Shapes of Survival Curves . . . 15--21
Maarten D. J. Schreuder and
Carol A. Brewer and
Carlton Heine Modelled Influences of Non-exchanging
Trichomes on Leaf Boundary Layers and
Gas Exchange . . . . . . . . . . . . . . 23--32
Ralf Möller Do Insects Use Templates or Parameters
for Landmark Navigation? . . . . . . . . 33--45
Brian Charlesworth Patterns of Age-specific Means and
Genetic Variances of Mortality Rates
Predicted by the Mutation-Accumulation
Theory of Ageing . . . . . . . . . . . . 47--65
Soyoka Muko and
Kazuhiko Sakai and
Yoh Iwasa Dynamics of Marine Sessile Organisms
with Space-limited Growth and
Recruitment: Application to Corals . . . 67--80
Paul R. Armsworth Directed Motion in the Sea: Efficient
Swimming by Reef Fish Larvae . . . . . . 81--91
J. H. Mao and
K. A. Lindsay and
R. J. Mairs and
T. E. Wheldon The Effect of Tissue-specific Growth
Patterns of Target Stem Cells on the
Spectrum of Tumours Resulting from
Multistage Tumorigenesis . . . . . . . . 93--100
Michael S. Longuet-Higgins Geometrical Constraints on the
Development of a Diatom . . . . . . . . 101--105
Balakrishna Subramanian and
David E. Axelrod Progression of Heterogeneous Breast
Tumors . . . . . . . . . . . . . . . . . 107--119
Bonnie Anderson Bray The Role of Hyaluronan in the Pulmonary
Alveolus . . . . . . . . . . . . . . . . 121--130
Anonymous Third Georgia Tech--Emory International
Conference on Bioinformatics . . . . . . 131--132
Anonymous Pages 1--132 (7 May 2001) . . . . . . . ??
Dr A. Hastings In Memoriam: Joel E. Keizer . . . . . . 133--139
Bo Yan and
Robert M. Miura and
Yi-Der Chen Direction Reversal of
Fluctuation-induced Biased Brownian
Motion on Distorted Ratchets . . . . . . 141--150
Christopher P. Fall and
Joel E. Keizer Mitochondrial Modulation of
Intracellular Ca$^{2+}$ Signaling . . . 151--165
Didier Gonze and
Albert Goldbeter A Model for a Network of
Phosphorylation-dephosphorylation Cycles
Displaying the Dynamics of Dominoes and
Clocks . . . . . . . . . . . . . . . . . 167--186
Gregory Benison and
Joel Keizer and
Leo M. Chalupa and
David W. Robinson Modeling Temporal Behavior of Postnatal
Cat Retinal Ganglion Cells . . . . . . . 187--199
C. T. Lee and
M. F. Hoopes and
J. Diehl and
W. Gilliland and
G. Huxel and
E. V. Leaver and
K. Mccann and
J. Umbanhowar and
A. Mogilner Non-local Concepts and Models in Biology 201--219
Abdul I. Barakat A Model for Shear Stress-induced
Deformation of a Flow Sensor on the
Surface of Vascular Endothelial Cells 221--236
Dmitry Medvedev and
Alexei A. Stuchebrukhov DNA Repair Mechanism by Photolyase:
Electron Transfer Path from the
Photolyase Catalytic Cofactor FADH$^-$
to DNA Thymine Dimer . . . . . . . . . . 237--248
John J. Tyson and
Bela Novak Regulation of the Eukaryotic Cell Cycle:
Molecular Antagonism, Hysteresis, and
Irreversible Transitions . . . . . . . . 249--263
Anonymous Pages 133--263 (21 May 2001) . . . . . . ??
Michael Meyer-Hermann and
Andreas Deutsch and
Michal Or-Guil Recycling Probability and Dynamical
Properties of Germinal Center Reactions 265--285
Robert K. Swihart and
Zhilan Feng and
Norman A. Slade and
Doran M. Mason and
Thomas M. Gehring Effects of Habitat Destruction and
Resource Supplementation in a
Predator--Prey Metapopulation Model . . 287--303
Bo-Ping Han and
Milan Straskraba Control Mechanisms of Diel Vertical
Migration: Theoretical Assumptions . . . 305--318
D. Eichler Slow Proliferation as a Survival
Advantage: an Attempt to Resolve a
Paradox . . . . . . . . . . . . . . . . 319--325
József Baranyi and
Carmen Pin A Parallel Study on Bacterial Growth and
Inactivation . . . . . . . . . . . . . . 327--336
Sven Kurbel and
Beatrica Kurbel and
Branko Dmitrovi\'c and
Aleksandar Vcev A Model of the Gastric Gland Ejection
Cycle: Low Ejection Fractions Require
Reduction of the Glandular Dead Space 337--343
William H. James Handedness, Birth Weight, Mortality and
Barker's Hypothesis . . . . . . . . . . 345--346
D. M. Lewis and
T. J. Pedley The Influence of Turbulence on Plankton
Predation Strategies . . . . . . . . . . 347--365
Audun Bakk and
Johan S. Hòye and
Alex Hansen and
Kim Sneppen Thermodynamical Implications of a
Protein Model with Water Interactions 367--373
Tim A. Hely and
Bruce Graham and
Arjen Van Ooyen A Computational Model of Dendrite
Elongation and Branching Based on MAP2
Phosphorylation . . . . . . . . . . . . 375--384
Simcha Lev-Yadun Aposematic (warning) Coloration
Associated with Thorns in Higher Plants 385--388
Peter Zioupos and
John D. Currey and
Adri\`a Casinos Tensile Fatigue in Bone: Are Cycles-, or
Time to Failure, or Both, Important? . . 389--399
Anonymous Pages 265--399 (7 June 2001) . . . . . . ??
Hiroki R. Ueda and
Masatoshi Hagiwara and
Hiroaki Kitano Robust Oscillations within the
Interlocked Feedback Model of Drosophila
Circadian Rhythm . . . . . . . . . . . . 401--406
Cino Pertoldi and
Torsten Nygaard Kristensen and
Volker Loeschcke A New Method for Estimating
Environmental Variability for Clonal
Organisms, and the Use of Fluctuating
Asymmetry as an Indicator of
Developmental Instability . . . . . . . 407--410
Shu-Yun Le and
Wei-Min Liu and
Jih-H. Chen and
Jacob V. Maizel Local Thermodynamic Stability Scores Are
Well Represented by a Non-central
Student's $t$ Distribution . . . . . . . 411--423
D. R. Forsdyke Adaptive Value of Polymorphism in
Intracellular Self/Not-self
Discrimination? . . . . . . . . . . . . 425--434
Stephen P. Ellner Pair Approximation for Lattice Models
with Multiple Interaction Scales . . . . 435--447
Mark A. Lewis and
Paul Moorcroft ESS Analysis of Mechanistic Models for
Territoriality: the Value of Scent Marks
in Spatial Resource Partitioning . . . . 449--461
A. Y. Cheer and
Y. Ogami and
S. L. Sanderson Computational Fluid Dynamics in the Oral
Cavity of Ram Suspension-Feeding Fishes 463--474
Hirotami T. Imai and
Yoko Satta and
Naoyuki Takahata Integrative Study on Chromosome
Evolution of Mammals, Ants and Wasps
Based on the Minimum Interaction Theory 475--497
Anonymous Pages 401--497 (21 June 2001) . . . . . ??
Ross Cressman and
József Garay and
Josef Hofbauer Evolutionary Stability Concepts for
$N$-species Frequency-dependent
Interactions . . . . . . . . . . . . . . 1--10
Ingemar Nåsell Extinction and Quasi-stationarity in the
Verhulst Logistic Model . . . . . . . . 11--27
Wayne S. Kendal The Size Distribution of Human
Hematogenous Metastases . . . . . . . . 29--38
Aasim G. Chowdhary and
John H. Challis The Biomechanics of an Overarm Throwing
Task: a Simulation Model Examination of
Optimal Timing of Muscle Activations . . 39--53
Tony Farquhar and
Helen Meyer-Phillips Relative Safety Factors against Global
Buckling, Anchorage Rotation, and Tissue
Rupture in Wheat . . . . . . . . . . . . 55--65
Sergio R. P. Line Molecular Morphogenetic Fields in the
Development of Human Dentition . . . . . 67--75
Anonymous Pages 1--75 (7 July 2001) . . . . . . . ??
Joji M. Otaki and
Stuart Firestein Length Analyses of Mammalian
G-protein-coupled Receptors . . . . . . 77--100
James A. Mackintosh The Antimicrobial Properties of
Melanocytes, Melanosomes and Melanin and
the Evolution of Black Skin . . . . . . 101--113
Lucas Sánchez and
Denis Thieffry A Logical Analysis of the Drosophila
Gap-gene System . . . . . . . . . . . . 115--141
A. Mogilner and
A. J. Fisher and
R. J. Baskin Structural Changes in the Neck Linker of
Kinesin Explain the Load Dependence of
the Motor's Mechanical Cycle . . . . . . 143--157
Daniel B. Neill Optimality Under Noise: Higher Memory
Strategies for the Alternating
Prisoner's Dilemma . . . . . . . . . . . 159--180
Michael Mogie and
Moya Cousins Are Sample Sizes Usually at least an
Order of Magnitude Too Low for Reliable
Estimates of Leaf Asymmetry? . . . . . . 181--185
Anonymous Pages 77--185 (21 July 2001) . . . . . . ??
Masakado Kawata The Influence of Neighborhood Size and
Habitat Shape on the Accumulation of
Deleterious Mutations . . . . . . . . . 187--199
Per östborn and
Björn Wohlfart and
Gunnar Ohlén Arrhythmia as a Result of Poor
Intercellular Coupling in the Sinus
Node: a Simulation Study . . . . . . . . 201--217
Per östborn and
Gunnar Ohlén and
Björn Wohlfart Simulated Sinoatrial Exit Blocks
Explained by Circle Map Analysis . . . . 219--227
R. D. Cousens and
A. A. Rawlinson When Will Plant Morphology Affect the
Shape of a Seed Dispersal ``Kernel''? 229--238
Karl-Hartmut Von Wangenheim and
Hans-Peter Peterson A Mechanism of Intracellular Timing and
its Cooperation with Extracellular
Signals in Controlling Cell
Proliferation and Differentiation, an
Amended Hypothesis . . . . . . . . . . . 239--251
Steven H. Kleinstein and
Jaswinder Pal Singh Toward Quantitative Simulation of
Germinal Center Dynamics: Biological and
Modeling Insights from Experimental
Validation . . . . . . . . . . . . . . . 253--275
Mark A. Changizi Universal Scaling Laws for Hierarchical
Complexity in Languages, Organisms,
Behaviors and other Combinatorial
Systems . . . . . . . . . . . . . . . . 277--295
Anonymous Pages 187--295 (7 August 2001) . . . . . ??
Sido D. Mylius and
Odo Diekmann The Resident Strikes Back:
Invader-Induced Switching of Resident
Attractor . . . . . . . . . . . . . . . 297--311
D. Wenzler and
M. Reinhardt and
L. Fukshansky Topology of an Intracellular
Transduction Chain (Phototropism of
Phycomyces ): 1. Joint Review of
Functional, Temporal, and Spatial
Aspects . . . . . . . . . . . . . . . . 313--332
M. Reinhardt and
D. Wenzler and
L. Fukshansky Topology of an Intracellular
Transduction Chain (Phototropism of
Phycomyces ): 2. Mathematical Model of
Pattern Transduction . . . . . . . . . . 333--345
Toshiyuki Nakajima Probabilities of Encounters between
Objects in Biological Systems:
Meta-observer View . . . . . . . . . . . 347--363
B. R. Pittendrigh and
P. J. Gaffney Pesticide Resistance: Can we make it a
Renewable Resource? . . . . . . . . . . 365--375
Arnold S. Tannenbaum The Sense of Consciousness . . . . . . . 377--391
C. Utzny and
N. J. Burroughs Long-term Stability of Diverse
Immunological Memory . . . . . . . . . . 393--402
A. Hoffman and
Lee M. Spetner and
M. Burke Cessation of Cell Proliferation by
Adjustment of Cell Redox Potential . . . 403--407
C. J. Proctor and
M. Broom and
G. D. Ruxton Modelling antipredator vigilance and
flight response in group foragers when
warning signals are ambiguous . . . . . 409--417
Dominik Wodarz and
Vincent A. A. Jansen The Role of T Cell Help for Anti-viral
CTL Responses . . . . . . . . . . . . . 419--432
Anonymous Erratum: In Memoriam: Joel E. Keiser . . 433--433
Anonymous Pages 297--433 (21 August 2001) . . . . ??
V. V. Gafiychuk and
I. A. Lubashevsky On the Principles of the Vascular
Network Branching . . . . . . . . . . . 1--9
U. Bastolla and
M. Lässig and
S. C. Manrubia and
A. Valleriani Diversity Patterns from Ecological
Models at Dynamical Equilibrium . . . . 11--34
Aderonke Babajide and
Robert Farber and
Ivo L. Hofacker and
Jeff Inman and
Alan S. Lapedes and
Peter F. Stadler Exploring Protein Sequence Space Using
Knowledge-based Potentials . . . . . . . 35--46
V. Paar and
N. Pavin and
M. Rosandi\'c Link between Truncated Fractals and
Coupled Oscillators in Biological
Systems . . . . . . . . . . . . . . . . 47--56
Alan Lapedes and
Robert Farber The Geometry of Shape Space: Application
to Influenza . . . . . . . . . . . . . . 57--69
M. Danielsen and
J. T. Ottesen Describing the Pumping Heart as a
Pressure Source . . . . . . . . . . . . 71--81
Stephen Davis and
Nicholas Bax and
Peter Grewe Engineered Underdominance Allows
Efficient and Economical Introgression
of Traits into Pest Populations . . . . 83--98
István Scheuring and
Eörs Szathmáry Survival of Replicators with Parabolic
Growth Tendency and Exponential Decay 99--105
Shneior Lifson and
Hanna Lifson Coexistence and Darwinian Selection
among Replicators: Response to the
Preceding Paper by Scheuring and
Szathmary . . . . . . . . . . . . . . . 107--109
M. E. Gracheva and
R. Toral and
J. D. Gunton Stochastic Effects in Intercellular
Calcium Spiking in Hepatocytes . . . . . 111--125
Anonymous ERRATUM: a Logical Analysis of the
Drosophila Gap-gene System . . . . . . . 127--127
Anonymous ERRATUM: The Antimicrobial Properties of
Melanocytes, Melanosomes and Melanin and
the Evolution of Black Skin . . . . . . 128--128
Anonymous Pages 1--128 (7 September 2001) . . . . ??
Eric Poe Xing and
Denise M. Wolf and
Inna Dubchak and
Sylvia Spengler and
Manfred Zorn and
Ilya Muchnik and
Casimir Kulikowski Automatic Discovery of Sub-molecular
Sequence Domains in Multi-aligned
Sequences: a Dynamic Programming
Algorithm for Multiple Alignment
Segmentation . . . . . . . . . . . . . . 129--139
Sebastian J. Schreiber and
Nicholas J. Mills and
Andrew P. Gutierrez Host-limited Dynamics of Autoparasitoids 141--153
Ania Majewska and
Rafael Yuste Topology of Gap Junction Networks in
\bionameC. elegans . . . . . . . . . . . 155--167
A. Ryndin and
V. Kirzhner and
E. Nevo and
A. Korol Polymorphism Maintenance in Populations
with Mixed Random Mating and Apomixis
Subjected to Stabilizing and Cyclical
Selection . . . . . . . . . . . . . . . 169--181
M. Zamir Fractal Dimensions and Multifractility
in Vascular Branching . . . . . . . . . 183--190
Alicia Bailón-Plaza and
Marjolein C. H. Van Der Meulen A Mathematical Framework to Study the
Effects of Growth Factor Influences on
Fracture Healing . . . . . . . . . . . . 191--209
Julia C. Fox and
Tony M. Keaveny Trabecular Eccentricity and Bone
Adaptation . . . . . . . . . . . . . . . 211--221
Xin Chen and
Joel E. Cohen Global Stability, Local Stability and
Permanence in Model Food Webs . . . . . 223--235
P. P. F. Hanegraaf and
E. B. Muller The Dynamics of the Macromolecular
Composition of Biomass . . . . . . . . . 237--251
Ivana Beardmore and
K. A. Jane White Spreading Disease through Social
Groupings in Competition . . . . . . . . 253--269
Anonymous ERRATUM: The Sense of Conciousness . . . 271--271
Anonymous Pages 129--271 (21 September 2001) . . . ??
William H. James Finger-length Ratios, Sexual Orientation
and Offspring Sex Ratios . . . . . . . . 273--274
A. A. Bulychev and
A. A. Polezhaev and
S. V. Zykov and
T. Yu. Pljusnina and
G. Yu. Riznichenko and
A. B. Rubin and
W. Jantoß and
V. S. Zykov and
S. C. Müller Light-triggered pH Banding Profile in
Chara Cells Revealed with a Scanning pH
Microprobe and its Relation to
Self-Organization Phenomena . . . . . . 275--294
Joydev Chattopadhayay and
Ramrup Sarkar and
Maria Elena Fritzsche-Hoballah and
Ted C. J. Turlings and
Louis-Félix Bersier Parasitoids may Determine Plant Fitness
--- a Mathematical Model Based on
Experimental Data . . . . . . . . . . . 295--302
Frederick W. Cummings The Interaction of Surface Geometry with
Morphogens . . . . . . . . . . . . . . . 303--313
Roger G. Bowers and
David E. Hodgkinson Community Dynamics, Trade-offs, Invasion
Criteria and the Evolution of Host
Resistance to Microparasites . . . . . . 315--331
Rob J. De Boer and
António A. Freitas and
Alan S. Perelson Resource Competition Determines
Selection of B Cell Repertoires . . . . 333--343
Thomas Flatt and
Nicolas Maire and
Michael Doebeli A Bit of Sex Stabilizes Host--Parasite
Dynamics . . . . . . . . . . . . . . . . 345--354
Petr Král Species Orthogonalization . . . . . . . 355--366
S. D. Varfolomeyev and
K. G. Gurevich The Hyperexponential Growth of the Human
Population on a Macrohistorical Scale 367--372
Richard Law and
Judith L. Bronstein and
Régis Ferri\`ere On Mutualists and Exploiters:
Plant-insect Coevolution in Pollinating
Seed-parasite Systems . . . . . . . . . 373--389
N. B. Grover and
C. Coust\`ere-Yakir and
C. E. Helmstetter Synchronous Cultures from the Baby
Machine: Anatomy of a Model . . . . . . 391--398
Adrian L. R. Thomas and
Graham K. Taylor Animal Flight Dynamics I. Stability in
Gliding Flight . . . . . . . . . . . . . 399--424
Anonymous Pages 273--424 (7 October 2001) . . . . ??
Heinz Haschke A Biokinetic Model to Describe
Consequences of Inhibition/Stimulation
in DNA-Proofreading and Repair --- 1.
Development of the Model . . . . . . . . 425--456
Christopher C. Byrne and
Jeffrey A. Kurland Self-deception in an Evolutionary Game 457--480
Y. Guédon and
D. Barthélémy and
Y. Caraglio and
E. Costes Pattern Analysis in Branching and
Axillary Flowering Sequences . . . . . . 481--520
S. Kranenbarg and
J. H. G. Verhagen and
M. Muller and
J. L. Van Leeuwen Consequences of Forced Convection for
the Constraints on Size and Shape in
Embryos . . . . . . . . . . . . . . . . 521--533
Michael D. Radmacher and
Richard Simon and
Richard Desper and
Raymond Taetle and
Alejandro A. Schäffer and
Mark A. Nelson Graph Models of Oncogenesis with an
Application to Melanoma . . . . . . . . 535--548
Sergei Petrovskii and
Bai-Lian Li Increased Coupling Between
Subpopulations in a Spatially Structured
Environment Can Lead to Population
Outbreaks . . . . . . . . . . . . . . . 549--562
Yongwimon Lenbury International Conference on
Computational Mathematics and Modeling 563--563
Anonymous ERRATUM: a Model for a Network of
Phosphorylation-dephosphorylation Cycles
Displaying the Dynamics of Dominoes and
Clocks . . . . . . . . . . . . . . . . . 565--565
Anonymous Pages 425--565 (21 October 2001) . . . . ??
Ivan P. Gorlov and
Olga Yu. Gorlova Cost-Benefit Analysis of Recombination
and its Application for Understanding of
Chiasma Interference . . . . . . . . . . 1--8
Takashi Kunisawa Gene Arrangements and Phylogeny in the
Class Proteobacteria . . . . . . . . . . 9--19
Hadi Quesneville and
Dominique Anxolabéh\`ere Genetic Algorithm-based Model of
Evolutionary Dynamics of Class II
Transposable Elements . . . . . . . . . 21--30
Tatsuo Atsumi An Ultrasonic Motor Model for Bacterial
Flagellar Motors . . . . . . . . . . . . 31--51
Mary Ann Harrison and
Ying-Cheng Lai and
Robert D. Holt Dynamical Mechanism for Coexistence of
Dispersing Species . . . . . . . . . . . 53--72
Markus W. Covert and
Christophe H. Schilling and
Bernhard Palsson Regulation of Gene Expression in Flux
Balance Models of Metabolism . . . . . . 73--88
Joanna Tyrcha Age-dependent Cell Cycle Models . . . . 89--101
Herbert Gintis and
Eric Alden Smith and
Samuel Bowles Costly Signaling and Cooperation . . . . 103--119
Anonymous Pages 1--119 (7 November 2001) . . . . . ??
Bo-Ping Han Photosynthesis-Irradiance Response at
Physiological Level: a Mechanistic Model 121--127
Jinya Otsuka and
Yosuke Kawai and
Nobuyoshi Sugaya The Influence of Selection on the
Evolutionary Distance Estimated from the
Base Changes Observed between Homologous
Nucleotide Sequences . . . . . . . . . . 129--144
David C. Krakauer Selective Imitation for a Private Sign
System . . . . . . . . . . . . . . . . . 145--157
Jérôme Lacan and
Christian J. Michel Analysis of a Circular Code Model . . . 159--170
Johannes Jaeger and
Brian C. Goodwin A Cellular Oscillator Model for Periodic
Pattern Formation . . . . . . . . . . . 171--181
D. S. Houser and
R. Howard and
S. Ridgway Can Diving-induced Tissue Nitrogen
Supersaturation Increase the Chance of
Acoustically Driven Bubble Growth in
Marine Mammals? . . . . . . . . . . . . 183--195
A. D. Farmery and
J. P. Whiteley A Mathematical Model of Electron
Transfer Within the Mitochondrial
Respiratory Cytochromes . . . . . . . . 197--207
Ilan Eshel and
Emilia Sansone Multiple Asymmetry and Concord
Resolutions of a Conflict . . . . . . . 209--222
M. D. Hanigan and
L. A. Crompton and
J. A. Metcalf and
J. France Modelling Mammary Metabolism in the
Dairy Cow to Predict Milk Constituent
Yield, with Emphasis on Amino Acid
Metabolism and Milk Protein Production:
Model Construction . . . . . . . . . . . 223--239
Bärbel M. R. Stadler and
Peter F. Stadler and
Günter P. Wagner and
Walter Fontana The Topology of the Possible: Formal
Spaces Underlying Patterns of
Evolutionary Change . . . . . . . . . . 241--274
Nicky J. Welton and
Alasdair I. Houston A Theoretical Investigation into the
Direct and Indirect Effects of State on
the Risk of Predation . . . . . . . . . 275--297
William Harms Cooperative Boundary Populations: the
Evolution of Cooperation on Mortality
Risk Gradients . . . . . . . . . . . . . 299--313
Anonymous Pages 121--313 (21 November 2001) . . . ??
Aalpen A. Patel and
Edward T. Gawlinski and
Susan K. Lemieux and
Robert A. Gatenby A Cellular Automaton Model of Early
Tumor Growth and Invasion: The Effects
of Native Tissue Vascularity and
Increased Anaerobic Tumor Metabolism . . 315--331
Robert E. Kelly Tripedal Knuckle-walking: a Proposal for
the Evolution of Human Locomotion and
Handedness . . . . . . . . . . . . . . . 333--358
Wayne Dawson and
Kazuo Suzuki and
Kenji Yamamoto A Physical Origin for Functional Domain
Structure in Nucleic Acids as Evidenced
by Cross-linking Entropy: I . . . . . . 359--386
Wayne Dawson and
Kazuo Suzuki and
Kenji Yamamoto A Physical Origin for Functional Domain
Structure in Nucleic Acids as Evidenced
by Cross-linking Entropy: II . . . . . . 387--412
M. P. Yeates and
B. J. Tolkamp and
D. J. Allcroft and
I. Kyriazakis The use of Mixed Distribution Models to
Determine Bout Criteria for Analysis of
Animal Behaviour . . . . . . . . . . . . 413--425
István Scheuring and
Orsolya E. Zeöld Data Estimation and the Colour of Time
Series . . . . . . . . . . . . . . . . . 427--434
Svetlana Fishman and
Michel Génard and
Jean-Gérard Huguet Theoretical Analysis of Systematic
Errors Introduced by a Pedicel--Girdling
Technique used to Estimate Separately
the Xylem and Phloem Flows . . . . . . . 435--446
Dominik Wodarz Helper-dependent vs. Helper-independent
CTL Responses in HIV Infection:
Implications for Drug Therapy and
Resistance . . . . . . . . . . . . . . . 447--459
S. N. Beshers and
Z. Y. Huang and
Y. Oono and
G. E. Robinson Social Inhibition and the Regulation of
Temporal Polyethism in Honey Bees . . . 461--479
Daniel Segré and
Barak Shenhav and
Ron Kafri and
Doron Lancet The Molecular Roots of Compositional
Inheritance . . . . . . . . . . . . . . 481--491
Qian-Zhong Li and
Zhi-Qing Lu The Prediction of the Structural Class
of Protein: Application of the Measure
of Diversity . . . . . . . . . . . . . . 493--502
Anonymous ERRATUM: The Size Distribution of Human
Hematagenous Metastases . . . . . . . . 503--503
Anonymous Pages 315--503 (7 December 2001) . . . . ??
S. Micha\l Jazwinski Integrative Approaches to Aging
Biological Systems . . . . . . . . . . . 505--507
Leah Edelstein-Keshet and
Aliza Israel and
Peter Lansdorp Modelling Perspectives on Aging: Can
Mathematics Help us Stay Young? . . . . 509--525
Leonid A. Gavrilov and
Natalia S. Gavrilova The Reliability Theory of Aging and
Longevity . . . . . . . . . . . . . . . 527--545
Peter Olofsson and
Otto Schwalb and
Ranajit Chakraborty and
Marek Kimmel An Application of a General Branching
Process in the Study of the Genetics of
Aging . . . . . . . . . . . . . . . . . 547--557
Marc Mangel Complex Adaptive Systems, Aging and
Longevity . . . . . . . . . . . . . . . 559--571
Peter D. Sozou and
Thomas B. L. Kirkwood A Stochastic Model of Cell Replicative
Senescence Based on Telomere Shortening,
Oxidative Stress, and Somatic Mutations
in Nuclear and Mitochondrial DNA . . . . 573--586
F. Luciani and
S. Valensin and
R. Vescovini and
P. Sansoni and
F. Fagnoni and
C. Franceschi and
M. Bonaf\`e and
G. Turchetti A Stochastic Model for CD8 + T Cell
Dynamics in Human Immunosenescence:
Implications for Survival and Longevity 587--597
S. Micha\l Jazwinski and
Jaros\law Wawryn Profiles of Random Change During Aging
Contain Hidden Information about
Longevity and the Aging Process . . . . 599--608
Anonymous Pages 505--608 (21 December 2001) . . . ??
Nicholas J. Savill and
Richard Weller and
Jonathan A. Sherratt Mathematical Modelling of Nitric Oxide
Regulation of Rete Peg Formation in
Psoriasis . . . . . . . . . . . . . . . 1--16
H. El-Samad and
J. P. Goff and
M. Khammash Calcium Homeostasis and Parturient
Hypocalcemia: An Integral Feedback
Perspective . . . . . . . . . . . . . . 17--29
Peter Schofield and
Mark Chaplain and
Stephen Hubbard Mathematical Modelling of
Host--Parasitoid Systems: Effects of
Chemically Mediated Parasitoid Foraging
Strategies on Within- and
Between-generation Spatio-temporal
Dynamics . . . . . . . . . . . . . . . . 31--47
Tomás Revilla Effects of Intraguild Predation on
Resource Competition . . . . . . . . . . 49--62
Kenji Matsuura and
Eizi Kuno and
Takayoshi Nishida Homosexual Tandem Running as Selfish
Herd in Reticulitermes speratus: Novel
Antipredatory Behavior in Termites . . . 63--70
Jan A. Freund and
Lutz Schimansky-Geier and
Beatrix Beisner and
Alexander Neiman and
David F. Russell and
Tatyana Yakusheva and
Frank Moss Behavioral Stochastic Resonance: How the
Noise from a Daphnia Swarm Enhances
Individual Prey Capture by Juvenile
Paddlefish . . . . . . . . . . . . . . . 71--83
Alexander Taghva and
Yunmei Ma and
Michael R. Lieber Analysis of the Kinetic and Equilibrium
Binding of Ku Protein to DNA . . . . . . 85--97
Andy Purvis and
Aris Katzourakis and
Paul-Michael Agapow Evaluating Phylogenetic Tree Shape: Two
Modifications to Fusco and Cronk's
Method . . . . . . . . . . . . . . . . . 99--103
Catholijn M. Jonker and
Jacky L. Snoep and
Jan Treur and
Hans V. Westerhoff and
Wouter C. A. Wijngaards Putting Intentions into Cell
Biochemistry: An Artificial Intelligence
Perspective . . . . . . . . . . . . . . 105--134
Anonymous Pages 1--134 (7 January 2002) . . . . . ??
J. Kearns and
L. Farnell and
W. G. Gibson and
Y. Q. Lin and
M. R. Bennett Quantal Current Fields around Individual
Boutons in Sympathetic Ganglia . . . . . 135--146
Alexandre Sambelashvili and
Igor R. Efimov The Pinwheel Experiment Re-revisited . . 147--153
Jeffrey P. Lorberbaum and
Daryl E. Bohning and
Ananda Shastri and
Lauren E. Sine Are There Really No Evolutionarily
Stable Strategies in the Iterated
Prisoner's Dilemma? . . . . . . . . . . 155--169
Avinoam Nir The Fertilization Dance: a Mechanical
View of the Egg Rotation During the
Initial Spermatozoa--Ovum Interaction 171--179
Shea N. Gardner Modeling Multi-drug Chemotherapy:
Tailoring Treatment to Individuals . . . 181--207
David Wick and
Steven G. Self and
Lawrence Corey Do Scarce Targets or T Killers Control
Primary HIV Infection? . . . . . . . . . 209--214
Nikolai A. Provorov and
Alex Yu. Borisov and
Igor A. Tikhonovich Developmental Genetics and Evolution of
Symbiotic Structures in Nitrogen-fixing
Nodules and Arbuscular Mycorrhiza . . . 215--232
S. A. L. M. Kooijman and
H. A. Dijkstra and
B. W. Kooi Light-induced Mass Turnover in a
Mono-species Community of Mixotrophs . . 233--254
Jan Sielewiesiuk and
Elzbieta Malarczyk A Cycle of Enzymatic Reactions that
Behaves like a Neuronal Circuit . . . . 255--262
Yuri G. Anissimov and
Anthony J. Bracken and
Michael S. Roberts Catheter Effects in Organ Perfusion
Experiments . . . . . . . . . . . . . . 263--273
Bo Cartling Control of Neural Information
Transmission by Synaptic Dynamics . . . 275--292
Giorgio Recordati The Visceral Nervous System and its
Environments . . . . . . . . . . . . . . 293--304
Marta Ginovart and
Daniel López and
Joaquim Valls INDISIM, An Individual-based Discrete
Simulation Model to Study Bacterial
Cultures . . . . . . . . . . . . . . . . 305--319
Juana Cabanes and
Soledad Chazarra and
Francisco García-Carmona Tyrosinase Kinetics: a Semi-quantitative
Model of the Mechanism of Oxidation of
Monohydric and Dihydric Phenolic
Substrates --- Reply . . . . . . . . . . 321--325
Patrick A. Riley Response to Letter from Cabanes et al. 327--328
Anonymous Pages 135--328 (21 January 2002) . . . . ??
Patsy Haccou and
Olivier Glaizot The ESS in an Asymmetric Generalized War
of Attrition with Mistakes in Role
Perception . . . . . . . . . . . . . . . 329--349
G. K. Taylor and
A. L. R. Thomas Animal Flight Dynamics II. Longitudinal
Stability in Flapping Flight . . . . . . 351--370
Yoshinobu Inada and
Keiji Kawachi Order and Flexibility in the Motion of
Fish Schools . . . . . . . . . . . . . . 371--387
Stefano Ghirlanda Intensity Generalization: Physiology and
Modelling of a Neglected Topic . . . . . 389--404
Jose M. Montoya and
Ricard V. Solé Small World Patterns in Food Webs . . . 405--412
Jonathan C. K. Wells Thermal Environment and Human Birth
Weight . . . . . . . . . . . . . . . . . 413--425
Jean-Christophe Doré and
Tiiu Ojasoo and
Michel Thireau Using the Volumetric Indices of
Telencephalic Structures to Distinguish
\bionameSalamandridae and
\bionamePlethodontidae: Comparison of
Three Statistical Methods . . . . . . . 427--439
F. Saffre and
J. L. Deneubourg Swarming Strategies for Cooperative
Species . . . . . . . . . . . . . . . . 441--451
Joshua B. Plotkin and
Martin A. Nowak The Different Effects of Apoptosis and
DNA Repair on Tumorigenesis . . . . . . 453--467
J. Halloy and
B. A. Bernard and
G. Loussouarn and
A. Goldbeter The Follicular Automaton Model: Effect
of Stochasticity and of Synchronization
of Hair Cycles . . . . . . . . . . . . . 469--479
F. A. Daudet and
A. Lacointe and
J. P. Gaudill\`ere and
P. Cruiziat Generalized Münch Coupling between Sugar
and Water Fluxes for Modelling Carbon
Allocation as Affected by Water Status 481--498
Stuart A. West and
J. Paul Cunningham A General Model for Host Plant Selection
in Phytophagous Insects . . . . . . . . 499--513
Joaquim Fort A Comment on Amplification and Spread of
Viruses in a Growing Plaque . . . . . . 515--518
Anonymous Pages 329--518 (7 February 2002) . . . . ??
Bo-Ping Han A Mechanistic Model of Algal
Photoinhibition Induced by Photodamage
to Photosystem --- II . . . . . . . . . 519--527
Ramon González and
Barbara A. Andrews and
Juan A. Asenjo Kinetic Model of BiP- and PDI-mediated
Protein Folding and Assembly . . . . . . 529--537
Ulrich Hopfer A Maxwell's Demon Type of Membrane
Transport: Possibility for Active
Transport by ABC-Type Transporters? . . 539--547
Hiroto Shoji and
Yoh Iwasa and
Atushi Mochizuki and
Shigeru Kondo Directionality of Stripes Formed by
Anisotropic Reaction--Diffusion Models 549--561
Kunihiko Kaneko and
Tetsuya Yomo On a Kinetic Origin of Heredity:
Minority Control in a Replicating System
with Mutually Catalytic Molecules . . . 563--576
Didier Gonze and
Marc R. Roussel and
Albert Goldbeter A Model for the Enhancement of Fitness
in Cyanobacteria Based on Resonance of a
Circadian Oscillator with the External
Light--Dark Cycle . . . . . . . . . . . 577--597
James P. Grover Stoichiometry, Herbivory and Competition
for Nutrients: Simple Models based on
Planktonic Ecosystems . . . . . . . . . 599--618
Ralf Möller Insects Could Exploit UV-Green Contrast
for Landmark Navigation . . . . . . . . 619--631
H. Korthals Altes and
D. Wodarz and
V. A. A. Jansen The Dual Role of CD4 T Helper Cells in
the Infection Dynamics of HIV and Their
Importance for Vaccination . . . . . . . 633--646
Renato Casagrandi and
Sergio Rinaldi On the Aperiodic Locomotor Behavior of
Halobacterium salinarium Under Periodic
Light Stimuli . . . . . . . . . . . . . 647--656
Gonzalo G. De Polavieja Errors Drive the Evolution of Biological
Signalling to Costly Codes . . . . . . . 657--664
Anonymous Pages 519--664 (21 February 2002) . . . ??
J. López-Fidalgo and
Weng Kee Wong Design Issues for the Michaelis--Menten
Model . . . . . . . . . . . . . . . . . 1--11
Naofumi Nakayama and
Syunsuke Tanaka and
Osamu Kikuchi Ab Initio GB Study of Methylation
Reaction of Adenine, Cytosine, Guanine,
and Thymine by Methanediazonium Ion . . 13--22
T. Hölttä and
T. Vesala and
M. Perämäki and
E. Nikinmaa Relationships between Embolism, Stem
Water Tension, and Diameter Changes . . 23--38
M. S. Fowler and
G. D. Ruxton Population Dynamic Consequences of Allee
Effects . . . . . . . . . . . . . . . . 39--46
Thomas N. Sherratt and
Gilbert Roberts The Stability of Cooperation Involving
Variable Investment . . . . . . . . . . 47--56
J. Cubo and
D. Azagra and
A. Casinos and
J. Castanet Heterochronic Detection Through a
Function for the Ontogenetic Variation
of Bone Shape . . . . . . . . . . . . . 57--66
Jason A. Papin and
Nathan D. Price and
Jeremy S. Edwards and
Bernhard ò. Palsson The Genome-Scale Metabolic Extreme
Pathway Structure in Haemophilus
influenzae Shows Significant Network
Redundancy . . . . . . . . . . . . . . . 67--82
Carlos M. Hernández-Suárez A Markov Chain Approach to Calculate $
R_0 $ in Stochastic Epidemic Models . . 83--93
Otso Ovaskainen and
Kazunori Sato and
Jordi Bascompte and
Ilkka Hanski Metapopulation Models for Extinction
Threshold in Spatially Correlated
Landscapes . . . . . . . . . . . . . . . 95--108
Lars Philipson Functional Modules of the Brain . . . . 109--119
Peter Schofield Spatially Explicit Models of
Turelli--Hoffmann \bionameWolbachia
Invasive Wave Fronts . . . . . . . . . . 121--131
Anonymous Pages 1--131 (7 March 2002) . . . . . . ??
Michael J. O'Brien and
R. Lee Lyman and
Youssef Saab and
Elias Saab and
John Darwent and
Daniel S. Glover Two Issues in Archaeological
Phylogenetics: Taxon Construction and
Outgroup Selection . . . . . . . . . . . 133--150
Christopher Sewell and
Jeffrey J. Morgan and
Paul A. Lindahl Analysis of Protein Homeostatic
Regulatory Mechanisms in Perturbed
Environments at Steady State . . . . . . 151--167
L. A. Bruins Slot and
P. J. Pauwels and
F. C. Colpaert Sign-reversal during Persistent
Activation in $ \mu $-Opioid Signal
Transduction . . . . . . . . . . . . . . 169--182
Kyle W. Shertzer and
Stephen P. Ellner Energy Storage and the Evolution of
Population Dynamics . . . . . . . . . . 183--200
J. López-Sánchez and
A. Murciano and
R. Lahoz-Beltrá and
J. Zamora and
N. I. Giménez-Abián and
J. F. López-Sáez and
C. De La Torre and
J. L. Cánovas Modelling Complex Populations Formed by
Proliferating, Quiescent and
Quasi-quiescent Cells: Application to
Plant Root Meristems . . . . . . . . . . 201--213
Vivek Ramakrishnan and
David D. Busath An Inverting Basket Model for AE1
Transport . . . . . . . . . . . . . . . 215--226
Juan P. Aparicio and
Angel F. Capurro and
Carlos Castillo-Chavez Markers of Disease Evolution: The Case
of Tuberculosis . . . . . . . . . . . . 227--237
Pedro De Atauri and
David A. Fell and
Christophe Chassagnole and
Dolors Magret and
Jean Pierre Mazat and
Marta Cascante Dependence of Control Coefficient
Distribution on the Boundaries of a
Metabolic System: a Generalized Analysis
of the Effects of Additional Input and
Output reactions to a Linear Pathway . . 239--251
Yuu Nakayama and
Hiromi Seno and
Hiroyuki Matsuda A Population Dynamic Model for
Facultative Agamosperms . . . . . . . . 253--262
Anonymous Pages 133--262 (21 March 2002) . . . . . ??
Christian H. Reick Two Notions of Conspicuity and the
Classification of Phyllotaxis . . . . . 263--271
O. V. Aslanidi and
O. A. Mornev and
M. Vesterager and
M. P. Sòrensen and
P. L. Christiansen A Model for Glucose-induced Wave
Propagation in Pancreatic Islets of
Langerhans . . . . . . . . . . . . . . . 273--286
Robert Boyd and
Peter J. Richerson Group Beneficial Norms Can Spread
Rapidly in a Structured Population . . . 287--296
Francis Maurin A Mathematical Model of Chemoreception
for Odours and Taste . . . . . . . . . . 297--303
Jonathan G. Hillier and
A. Nicholas E. Birch Bi-trophic Mathematical Model for Pest
Adaptation to a Resistant Crop . . . . . 305--319
I. Dostáiková and
M. Spinka and
P. Kindlmann Begging for Milk: Evolution of Teat
Massaging in Suckling Pigs . . . . . . . 321--332
J. Chattopadhayay and
R. R. Sarkar and
S. Mandal Toxin-producing Plankton May Act as a
Biological Control for Planktonic Blooms
--- Field Study and Mathematical
Modelling . . . . . . . . . . . . . . . 333--344
Atsushi Mochizuki Pattern Formation of the Cone Mosaic in
the Zebrafish Retina: a Cell
Rearrangement Model . . . . . . . . . . 345--361
Jacques Gautrais and
Guy Theraulaz and
Jean-Louis Deneubourg and
Carl Anderson Emergent Polyethism as a Consequence of
Increased Colony Size in Insect
Societies . . . . . . . . . . . . . . . 363--373
Clemens Wagner and
Jörg W. Stucki Construction of an Associative Memory
using Unstable Periodic Orbits of a
Chaotic Attractor . . . . . . . . . . . 375--384
Anonymous Pages 263--384 (7 April 2002) . . . . . ??
Jonathan Yearsley and
Ian M. Hastings and
Iain J. Gordon and
Ilias Kyriazakis and
Andrew W. Illius A Lifetime Perspective on Foraging and
Mortality . . . . . . . . . . . . . . . 385--397
Silke Thoms Hydrogen Bonds and the Catalytic
Mechanism of Human Carbonic Anhydrase II 399--404
Uwe Schlink On the Probability Model for Asthma
Attacks . . . . . . . . . . . . . . . . 405--414
Lemont B. Kier and
Chao-Kun Cheng and
Bernard Testa A Cellular Automata Model of Ligand
Passage Over a Protein Hydrodynamic
Landscape . . . . . . . . . . . . . . . 415--426
Dhruba Naug and
Scott Camazine The Role of Colony Organization on
Pathogen Transmission in Social Insects 427--439
Ferenc Jordán and
István Scheuring and
Gábor Vida Species Positions and Extinction
Dynamics in Simple Food Webs . . . . . . 441--448
Leiv òyehaug and
Erik Plahte and
Dag I. Våge and
Stig W. Omholt The Regulatory Basis of Melanogenic
Switching . . . . . . . . . . . . . . . 449--468
Javier G. P. Gamarra and
Ricard V. Solé Biomass-Diversity Responses and Spatial
Dependencies in Disturbed Tallgrass
Prairies . . . . . . . . . . . . . . . . 469--480
Guy Theraulaz and
Eric Bonabeau and
Ricard V. Solé and
Bertrand Schatz and
Jean-Louis Deneubourg Task Partitioning in a Ponerine Ant . . 481--489
R. A. Alberty Thermodynamics of Systems of Biochemical
Reactions . . . . . . . . . . . . . . . 491--501
Anonymous Pages 385--501 (21 April 2002) . . . . . ??
Avinoam Rabinovitch and
Itzhak Fishov and
Hilla Hadas and
Monica Einav and
Arieh Zaritsky Bacteriophage T4 Development in
\bionameEscherichia coli is Growth Rate
Dependent . . . . . . . . . . . . . . . 1--4
J. David Logan and
Anthony Joern and
William Wolesensky Location, Time, and Temperature
Dependence of Digestion in Simple Animal
Tracts . . . . . . . . . . . . . . . . . 5--18
Mineo Morohashi and
Amanda E. Winn and
Mark T. Borisuk and
Hamid Bolouri and
John Doyle and
Hiroaki Kitano Robustness as a Measure of Plausibility
in Models of Biochemical Networks . . . 19--30
Christian W. Eurich and
Michael C. Mackey and
Helmut Schwegler Recurrent Inhibitory Dynamics: The Role
of State-Dependent Distributions of
Conduction Delay Times . . . . . . . . . 31--50
Lev A. Zhivotovsky A Model of the Early Evolution of
Soma-to-Germline Feedback . . . . . . . 51--57
Ivan V. Maly A Stochastic Model for Patterning of the
Cytoplasm by the Saltatory Movement . . 59--71
Kim Christensen and
Simone A. Di Collobiano and
Matt Hall and
Henrik J. Jensen Tangled Nature: a Model of Evolutionary
Ecology . . . . . . . . . . . . . . . . 73--84
Stephen Turner and
Jonathan A. Sherratt Intercellular Adhesion and Cancer
Invasion: a Discrete Simulation Using
the Extended Potts Model . . . . . . . . 85--100
Jachen Denoth and
Edgar Stüssi and
Gabor Csucs and
Gaudenz Danuser Single Muscle Fiber Contraction is
Dictated by Inter-Sarcomere Dynamics . . 101--122
Anonymous Pages 1--122 (7 May 2002) . . . . . . . ??
Kyoko Ohsawa and
Kohkichi Kawasaki and
Fugo Takasu and
Nanako Shigesada Recurrent Habitat Disturbance and
Species Diversity in a
Multiple-Competitive Species System . . 123--138
B. David Silverman A Two-Component Nucleation Model of
Protein Hydrophobicity . . . . . . . . . 139--146
Eric M. Kramer A Mathematical Model of Pattern
Formation in the Vascular Cambium of
Trees . . . . . . . . . . . . . . . . . 147--158
Ekaterina A. Ilyina and
Yuri B. Vakhtin Molecular Model for Limb Development . . 159--177
Athel Cornish-Bowden and
Jan-Hendrik S. Hofmeyr The Role of Stoichiometric Analysis in
Studies of Metabolism: An Example . . . 179--191
Gen Kurosawa and
Atsushi Mochizuki and
Yoh Iwasa Comparative Study of Circadian Clock
Models, in Search of Processes Promoting
Oscillation . . . . . . . . . . . . . . 193--208
Gro Vang Amdam and
Stig W. Omholt The Regulatory Anatomy of Honeybee
Lifespan . . . . . . . . . . . . . . . . 209--228
Olivier Cinquin and
Jacques Demongeot Positive and Negative Feedback: Striking
a Balance Between Necessary Antagonists 229--241
Frederick H. Silver and
Istvan Horvath and
David J. Foran Mechanical Implications of the Domain
Structure of Fiber-Forming Collagens:
Comparison of the Molecular and
Fibrillar Flexibilities of the $ \alpha
$1-Chains Found in Types I--III Collagen 243--254
Anonymous Metabolic Engineering IV: Applied System
Biology October 6--11, 2002 Il Ciocco,
Castelvecchio Pascoli (Tuscany), Italy 255--255
Anonymous Pages 123--255 (21 May 2002) . . . . . . ??
S. V. Koroleva and
I. P. Ashmarin Functional Continuum of Regulatory
Peptides (RPs): Vector Model of
RP-Effects Representation . . . . . . . 257--271
Michael Meyer-Hermann A Mathematical Model for the Germinal
Center Morphology and Affinity
Maturation . . . . . . . . . . . . . . . 273--300
Leah Edelstein-Keshet and
Athan Spiros Exploring the Formation of Alzheimer's
Disease Senile Plaques in Silico . . . . 301--326
Shai Rosenwald and
Ran Kafri and
Doron Lancet Test of a Statistical Model for
Molecular Recognition in Biological
Repertoires . . . . . . . . . . . . . . 327--336
Larry M. Manevitz and
Shimon Marom Modeling the Process of Rate Selection
in Neuronal Activity . . . . . . . . . . 337--343
Robert Root-Bernstein and
Julia V. Busik and
Douglas N. Henry Are Diabetic Neuropathy, Retinopathy and
Nephropathy Caused by Hyperglycemic
Exclusion of Dehydroascorbate Uptake by
Glucose Transporters? . . . . . . . . . 345--359
Kuang Lin and
Alex C. W. May and
William R. Taylor Amino Acid Encoding Schemes from Protein
Structure Alignments: Multi-dimensional
Vectors to Describe Residue Types . . . 361--365
L. Turin A Method for the Calculation of Odor
Character from Molecular Structure . . . 367--385
Anonymous Pages 257--385 (7 June 2002) . . . . . . ??
Wolfgang Sterrer On the Origin of Sex as Vaccination . . 387--396
Kohei Yoshiyama and
Hisao Nakajima Catastrophic Transition in Vertical
Distributions of Phytoplankton:
Alternative Equilibria in a Water Column 397--408
M. Muller and
J. H. G. Verhagen Optimization of the Mechanical
Performance of a Two-duct Semicircular
Duct System --- Part 1: Dynamics and
Duct Dimensions . . . . . . . . . . . . 409--424
M. Muller and
J. H. G. Verhagen Optimization of the Mechanical
Performance of a Two-duct Semicircular
Duct System --- Part 2: Excitation of
Endolymph Movements . . . . . . . . . . 425--442
M. Muller and
J. H. G. Verhagen Optimization of the Mechanical
Performance of a Two-duct Semicircular
Duct System --- Part 3: The Positioning
of the Ducts in the Head . . . . . . . . 443--459
Susanna C. Manrubia and
Damián H. Zanette At the Boundary between Biological and
Cultural Evolution: The Origin of
Surname Distributions . . . . . . . . . 461--477
Maithili Sharan and
Aleksander S. Popel A Compartmental Model for Oxygen
Transport in Brain Microcirculation in
the Presence of Blood Substitutes . . . 479--500
Hiroki R. Ueda and
Kenzo Hirose and
Masamitsu Iino Intercellular Coupling Mechanism for
Synchronized and Noise-Resistant
Circadian Oscillators . . . . . . . . . 501--512
Anonymous Pages 387--512 (21 June 2002) . . . . . ??
Hideyuki Câteau and
Shigeru Tanaka Kinetic Analysis of Multisite
Phosphorylation Using Analytic Solutions
to Michaelis--Menten Equations . . . . . 1--14
Niels P. R. Anten Evolutionarily Stable Leaf Area
Production in Plant Populations . . . . 15--32
Radoslav K. Andjus and
Zeljko Dzakula and
Marina Marjanovi\'c and
Dragoslava Zivadinovi\'c Kinetic Properties of the
Enzyme-Substrate System: a Basis for
Immediate Temperature Compensation . . . 33--46
Karl J. Niklas On the Allometry of Biomass Partitioning
and Light Harvesting for Plants with
Leafless Stems . . . . . . . . . . . . . 47--52
Toni Pujol The Consequence of Maximum Thermodynamic
Efficiency in Daisyworld . . . . . . . . 53--60
Hirotami T. Imai and
Yoko Satta and
Masayasu Wada and
Naoyuki Takahata Estimation of the Highest Chromosome
Number of Eukaryotes Based on the
Minimum Interaction Theory . . . . . . . 61--74
Alan Grafen A First Formal Link between the Price
Equation and an Optimization Program . . 75--91
J. T. Manning and
S. Martin and
R. L. Trivers and
M. Soler 2nd to 4th Digit Ratio and Offspring Sex
Ratio . . . . . . . . . . . . . . . . . 93--95
Julyan H. E. Cartwright Labyrinthine Turing Pattern Formation in
the Cerebral Cortex . . . . . . . . . . 97--103
Véronique Larreta-Garde and
Hugues Berry Modeling Extracellular Matrix
Degradation Balance with
Proteinase/Transglutaminase Cycle . . . 105--124
William J. Reed and
Barry D. Hughes On the Size Distribution of Live Genera 125--135
Anonymous Pages 1--135 (7 July 2002) . . . . . . . ??
Mike B. Gravenor and
Alun L. Lloyd and
Peter G. Kremsner and
Michel A. Missinou and
Mike English and
Kevin Marsh and
Dominic Kwiatkowski A Model for Estimating Total Parasite
Load in Falciparum Malaria Patients . . 137--148
K. Walters and
P. G. Blackwell Group Formation Games with Reappraisal 149--157
Nozomu Furuichi Dynamics between a Predator and a Prey
Switching Two Kinds of Escape Motions 159--166
Elias Zintzaras and
Mauro Santos and
Eörs Szathmáry ``Living'' Under the Challenge of
Information Decay: The Stochastic
Corrector Model vs. Hypercycles . . . . 167--181
Steven V. Viscido and
Matthew Miller and
David S. Wethey The Dilemma of the Selfish Herd: The
Search for a Realistic Movement Rule . . 183--194
S. M. Leisner and
D. A. Neher Third Position Codon Composition
Suggests Two Classes of Genes Within the
Cauliflower Mosaic Virus Genome . . . . 195--201
Wayne S. Kendal A Frequency Distribution for the Number
of Hematogenous Organ Metastases . . . . 203--218
Jean-Baptiste Ferdy and
Laurence Després and
Bernard Godelle Evolution of Mutualism Between
Globeflowers and their Pollinating Flies 219--234
David S. Stevenson Co-Evolution of the Genetic Code and
Ribozyme Replication . . . . . . . . . . 235--253
Ana B. Sendova-Franks and
Jan Van Lent Random Walk Models of Worker Sorting in
Ant Colonies . . . . . . . . . . . . . . 255--274
Anonymous Pages 137--274 (21 July 2002) . . . . . ??
Claudia Carrillo and
Michael Mogie and
Nicholas F. Britton Coexistence of Sexual and Asexual
Conspecifics: a Cellular Automaton Model 275--285
C. Fåhraeus and
S. Theander and
A. Edman and
W. Grampp The K--Cl Cotransporter in the Lobster
Stretch Receptor Neurone --- A Kinetic
Analysis . . . . . . . . . . . . . . . . 287--309
M. D. Hanigan and
L. A. Crompton and
B. J. Bequette and
J. A. N. Mills and
J. France Modelling Mammary Metabolism in the
Dairy Cow to Predict Milk Constituent
Yield, with Emphasis on Amino Acid
Metabolism and Milk Protein Production:
Model Evaluation . . . . . . . . . . . . 311--330
Ben O. Brilot and
Rufus A. Johnstone Cost, Competition and Information in
Communication between Relatives . . . . 331--340
Sami Aikio and
Esa Ranta and
Veijo Kaitala and
Per Lundberg Seed Bank in Annuals: Competition
Between Banker and Non-banker Morphs . . 341--349
Sébastien Gourbiere and
Ffrançois Gourbiere Competition between Unit-restricted
Fungi: a Metapopulation Model . . . . . 351--368
Nicolas Loeuille and
Michel Loreaul and
Réegis Ferri\`ere Consequences of Plant--Herbivore
Coevolution on the Dynamics and
Functioning of Ecosystems . . . . . . . 369--381
M.-Th. Hütt and
U. Rascher and
F. Beck and
U. Lüttge Period-2 Cycles and 2:1 Phase Locking in
a Biological Clock Driven by Temperature
Pulses . . . . . . . . . . . . . . . . . 383--390
Esa Ranta and
David Tesar and
Veijo Kaitala Environmental Variability and
Semelparity vs. Iteroparity as Life
Histories . . . . . . . . . . . . . . . 391--396
Lloyd Demetrius Thermodynamics and Kinetics of Protein
Folding: An Evolutionary Perspective . . 397--411
Anonymous Pages 275--411 (7 August 2002) . . . . . ??
Jean-Baptiste Ferdy and
Jane Molofsky Allee Effect, Spatial Structure and
Species Coexistence . . . . . . . . . . 413--424
Hiroaki Daido Population Dynamics of Clock-Controlled
Biological Species: Models and Why
Circadian Rhythms are Circadian . . . . 425--442
Roland R. Regoes and
Sebastian Bonhoeffer HIV Coreceptor Usage and Drug Treatment 443--457
Graeme P. Boswell and
Helen Jacobs and
Fordyce A. Davidson and
Geoffrey M. Gadd and
Karl Ritz Functional Consequences of Nutrient
Translocation in Mycelial Fungi . . . . 459--477
Christoforos Nikolaou and
Yannis Almirantis A Study of the Middle-scale Nucleotide
Clustering in DNA Sequences of Various
Origin and Functionality, by means of a
Method based on a Modified Standard
Deviation . . . . . . . . . . . . . . . 479--492
Juan A. Martínez Giménez and
Rafael Tabarés Seisdedos On the Dimerization of the Primitive
tRNAs: Implications in the Origin of
Genetic Code . . . . . . . . . . . . . . 493--498
Vladimír Kovác Synchrony and Heterochrony in Ontogeny
(of Fish) . . . . . . . . . . . . . . . 499--507
M. E. Jones and
M. N. Berry and
J. W. Phillips Futile Cycles Revisited: a Markov Chain
Model of Simultaneous Glycolysis and
Gluconeogenesis . . . . . . . . . . . . 509--523
Yi Tao and
Sabin Lessard Frequency-dependent Selection in Sexual
Family-structured Populations . . . . . 525--534
Graeme E. Pound and
C. Patrick Doncaster and
Simon J. Cox A Lotka--Volterra Model of Coexistence
between a Sexual Population and Multiple
Asexual Clones . . . . . . . . . . . . . 535--545
Anonymous Pages 413--545 (21 August 2002) . . . . ??
Iain D. Couzin and
Jens Krause and
Richard James and
Graeme D. Ruxton and
Nigel R. Franks Collective Memory and Spatial Sorting in
Animal Groups . . . . . . . . . . . . . 1--11
L. J. Willett and
S. K. Loyalka Sticking Coefficient-Orchestrated
Selection in a Kinetic Model for the
First Origin . . . . . . . . . . . . . . 13--33
Mark Staley Darwinian Selection Leads to Gaia . . . 35--46
W. Ian Reilly Magnetic Position Determination by
Homing Pigeons? . . . . . . . . . . . . 47--54
Paul Waltman and
James Braselton and
Lorraine Braselton A Mathematical Model of a Biological
Arms Race with a Dangerous Prey . . . . 55--70
Robert Root-Bernstein Molecular Complementarity III. Peptide
Complementarity as a Basis for Peptide
Receptor Evolution: a Bioinformatic Case
Study of Insulin, Glucagon and Gastrin 71--84
M. C. Strain and
D. D. Richman and
J. K. Wong and
H. Levine Spatiotemporal Dynamics of HIV
Propagation . . . . . . . . . . . . . . 85--96
David C. Krakauer and
Vincent A. A. Jansen Red Queen Dynamics of Protein
Translation . . . . . . . . . . . . . . 97--109
Deborah R. Hart Intraguild Predation, Invertebrate
Predators, and Trophic Cascades in Lake
Food Webs . . . . . . . . . . . . . . . 111--128
Richard A. Lazenby Skeletal Biology, Functional Asymmetry
and the Origins of ``Handedness'' . . . 129--138
Anonymous Pages 1--138 (7 September 2002) . . . . ??
R. P. Bywater and
A. Sòrensen and
P. Rògen and
P. G. Hjorth Construction of the Simplest Model to
Explain Complex Receptor Activation
Kinetics . . . . . . . . . . . . . . . . 139--147
Mats Björklund Optimal Mate Choice in a Neural Network 149--154
Patrick Cañadas and
Valerie M. Laurent and
Christian Oddou and
Daniel Isabey and
Sylvie Wendling A Cellular Tensegrity Model to Analyse
the Structural Viscoelasticity of the
Cytoskeleton . . . . . . . . . . . . . . 155--173
Emmanuel Paradis and
Julien Claude Analysis of Comparative Data Using
Generalized Estimating Equations . . . . 175--185
Christoph Hauert and
Silvia De Monte and
Josef Hofbauer and
Karl Sigmund Replicator Dynamics for Optional Public
Good Games . . . . . . . . . . . . . . . 187--194
Shiro Horiuchi and
Norio Yamamura and
Takuya Abe Soldier Production Strategy in Lower
Termites: From Young Instars or Old
Instars? . . . . . . . . . . . . . . . . 195--205
Robert B. Raffa Harmonic Mean Relationship between
Affinity for wild-type Receptors and
Alanine-scan mutants . . . . . . . . . . 207--214
M. A. Changizi and
M. A. Mcdannald and
D. Widders Scaling of Differentiation in Networks:
Nervous Systems, Organisms, Ant
Colonies, Ecosystems, Businesses,
Universities, Cities, Electronic
Circuits, and Legos . . . . . . . . . . 215--237
Armin Kargol and
Bryan Smith and
Mark M. Millonas Applications of Nonequilibrium Response
Spectroscopy to the Study of Channel
Gating. Experimental Design and
Optimization . . . . . . . . . . . . . . 239--258
Tian Hong Xu and
Ke Jing Deng Sex and Retrotransposons: a New Approach
to the Problem . . . . . . . . . . . . . 259--260
Anonymous Pages 139--260 (21 September 2002) . . . ??
Christoph Hauert and
Olaf Stenull Simple Adaptive Strategy Wins the
Prisoner's Dilemma . . . . . . . . . . . 261--272
Abdul-Aziz Yakubu and
Carlos Castillo-Chavez Interplay between Local Dynamics and
Dispersal in Discrete-time
Metapopulation Models . . . . . . . . . 273--288
Michael A. Gilchrist and
Akira Sasaki Modeling Host--Parasite Coevolution: a
Nested Approach Based on Mechanistic
Models . . . . . . . . . . . . . . . . . 289--308
R. Srivastava and
L. You and
J. Summers and
J. Yin Stochastic vs. Deterministic Modeling of
Intracellular Viral Kinetics . . . . . . 309--321
Iva Dostálková and
Pavel Kindlmann and
Anthony F. G. Dixon Are Classical Predator--Prey Models
Relevant to the Real World? . . . . . . 323--330
L. Raeymaekers Dynamics of Boolean Networks Controlled
by Biologically Meaningful Functions . . 331--341
Oscar J. G. Somsen and
Marco Siderius and
Florian F. Bauer and
Jacky L. Snoep and
Hans V. Westerhoff Selectivity in Overlapping MAP Kinase
Cascades . . . . . . . . . . . . . . . . 343--354
R. Varón and
F. García-Cánovas and
M. García-Moreno and
E. Valero and
M. Molina-Alarcón and
M. J. García-Meseguer and
J. A. Vidal De Labra and
C. Garrido-Del Solo Kinetic Analysis of the General Modifier
Mechanism of Botts and Morales Involving
a Suicide Substrate . . . . . . . . . . 355--374
David S. Boukal and
Ludek Berec Single-species Models of the Allee
Effect: Extinction Boundaries, Sex
Ratios and Mate Encounters . . . . . . . 375--394
Anonymous Pages 261--394 (7 October 2002) . . . . ??
Elliott Sober and
Michael Steel Testing the Hypothesis of Common
Ancestry . . . . . . . . . . . . . . . . 395--408
Yudong Cai and
C. T. J. Dodson and
Andrew J. Doig and
Olaf Wolkenhauer Information-Theoretic Analysis of
Protein Sequences Shows that Amino Acids
Self-cluster . . . . . . . . . . . . . . 409--418
Otso Ovaskainen Long-Term Persistence of Species and the
SLOSS Problem . . . . . . . . . . . . . 419--433
Jukka Corander and
Mikko J. Sillanpää A Unified Approach to Joint Modeling of
Multiple Quantitative and Qualitative
Traits in Gene Mapping . . . . . . . . . 435--446
Takeshi Sugimoto Darwinian Evolution Does Not Rule Out
the Gaia Hypothesis . . . . . . . . . . 447--455
David C. Krakauer and
Karen M. Page and
Stuart Sealfon Module Dynamics of the GnRH Signal
Transduction Network . . . . . . . . . . 457--470
Kevin J. Flynn and
Michael J. R. Fasham A Modelling Exploration of Vertical
Migration by Phytoplankton . . . . . . . 471--484
Martin Green and
Thomas Alerstam The Problem of Estimating Wind Drift in
Migrating Birds . . . . . . . . . . . . 485--496
Ichiji Tasaki Spread of Discrete Structural Changes in
Synthetic Polyanionic Gel: a Model of
Propagation of a Nerve Impulse . . . . . 497--505
Frank J. Bruggeman and
Hans V. Westerhoff and
Jan B. Hoek and
Boris N. Kholodenko Modular Response Analysis of Cellular
Regulatory Networks . . . . . . . . . . 507--520
P. R. Shorten and
I. Vetharaniam and
T. K. Soboleva and
G. C. Wake and
S. R. Davis Influence of Milking Frequency on
Mammary Gland Dynamics . . . . . . . . . 521--530
R. Henery and
L. Farnell and
W. G. Gibson and
M. R. Bennett Potential Fields in Vascular Smooth
Muscle Generated by Transmitter Release
from Sympathetic Varicosities . . . . . 531--548
István Karsai and
Gábor Balázsi Organization of Work via a Natural
Substance: Regulation of Nest
Construction in Social Wasps . . . . . . 549--565
Anonymous Pages 395--565 (21 October 2002) . . . . ??
David B. Dusenbery Ecological Models Explaining the Success
of Distinctive Sperm and Eggs (Oogamy) 1--7
Gregory L. Moore and
Costas D. Maranas Predicting Out-of-Sequence Reassembly in
DNA Shuffling . . . . . . . . . . . . . 9--17
David Wick and
Steven G. Self What's the Matter with HIV-directed
Killer T Cells? . . . . . . . . . . . . 19--31
Robert D. Guy and
Aaron L. Fogelson Probabilistic Modeling of Platelet
Aggregation: Effects of Activation Time
and Receptor Occupancy . . . . . . . . . 33--53
A. I. Dobrolyubov and
G. Douchy Peristaltic Transport as the Travelling
Deformation Waves . . . . . . . . . . . 55--61
M. Broom A Unified Model of Dominance Hierarchy
Formation and Maintenance . . . . . . . 63--72
Xu Cai-Lin and
Li Zi-Zhen Effect of Diffusion and Spatially
Varying Predation Risk on the Dynamics
and Equilibrium Density of a
Predator--Prey System . . . . . . . . . 73--82
L. H. A. Monteiro and
M. A. Bussab and
J. G. Chaui Berlinck Analytical Results on a Wilson--Cowan
Neuronal Network Modified Model . . . . 83--91
Karen M. Page and
Martin A. Nowak Unifying Evolutionary Dynamics . . . . . 93--98
Bjòrn Gilbert Nielsen Entropic Elasticity in the Generation of
Muscle Force --- a Theoretical Model . . 99--119
Rongling Wu and
Chang-Xing Ma and
Ramon C. Littell and
George Casella A Statistical Model for the Genetic
Origin of Allometric Scaling Laws in
Biology . . . . . . . . . . . . . . . . 121--135
Anonymous Pages 1--135 (7 November 2002) . . . . . ??
S. Ghorai and
N. A. Hill Axisymmetric Bioconvection in a Cylinder 137--152
Dagmar Iber and
Philip K. Maini A Mathematical Model for Germinal Centre
Kinetics and Affinity Maturation . . . . 153--175
Christophe Fraser and
Neil M. Ferguson and
Frank De Wolf and
Azra C. Ghani and
Geoff P. Garnett and
Roy M. Anderson Antigen-driven T-cell Turnover . . . . . 177--192
Vitaly V. Ganusov and
Anatoly V. Brilkov Estimating the Instability Parameters of
Plasmid-Bearing Cells. I. Chemostat
Culture . . . . . . . . . . . . . . . . 193--205
M. S. Penney and
N. F. Britton Modelling Natural Burst Firing in Nigral
Dopamine Neurons . . . . . . . . . . . . 207--223
Igor A. Sidorov and
Ken S. Hirsch and
Calvin B. Harley and
Dimiter S. Dimitrov Cancer Cell Dynamics in Presence of
Telomerase Inhibitors: Analysis of In
Vitro Data . . . . . . . . . . . . . . . 225--233
Mark A. Nicosia and
James G. Brasseur A Mathematical Model for Estimating
Muscle Tension in vivo during Esophageal
Bolus Transport . . . . . . . . . . . . 235--255
Boris Krupa On the Number of Experiments Required to
Find the Causal Structure of Complex
Systems . . . . . . . . . . . . . . . . 257--267
S. P. Kotha and
N. Guzelsu Modeling the Tensile Mechanical Behavior
of Bone along the Longitudinal Direction 269--279
Anonymous Pages 137--279 (21 November 2002) . . . ??
Steven A. Frank Immune Response to Parasitic Attack:
Evolution of a Pulsed Character . . . . 281--290
Carl L. Gardner and
Joseph W. Jerome and
Robert S. Eisenberg Electrodiffusion Model Simulation of
Rectangular Current Pulses in a
Voltage-Biased Biological Channel . . . 291--299
Tamiki Umeda and
Kei Inouye Possible Role of Contact Following in
the Generation of Coherent Motion of
Dictyostelium Cells . . . . . . . . . . 301--308
Emi Shudo and
Yoh Iwasa Optimal Defense Strategy: Storage vs.
New Production . . . . . . . . . . . . . 309--323
Michael J. Denton and
Craig J. Marshall and
Michael Legge The Protein Folds as Platonic Forms: New
Support for the Pre-Darwinian Conception
of Evolution by Natural Law . . . . . . 325--342
Yuri Mansury and
Mark Kimura and
Jose Lobo and
Thomas S. Deisboeck Emerging Patterns in Tumor Systems:
Simulating the Dynamics of Multicellular
Clusters with an Agent-based Spatial
Agglomeration Model . . . . . . . . . . 343--370
L. M. Wahl Evolving the Division of Labour:
Generalists, Specialists and Task
Allocation . . . . . . . . . . . . . . . 371--388
R. J. P. Williams The Problem of Proton Transfer in
Membranes . . . . . . . . . . . . . . . 389--396
M. Broom and
C. Cannings Modelling Dominance Hierarchy formation
as a Multi-player game . . . . . . . . . 397--413
Anonymous Pages 281--413 (7 December 2002) . . . . ??
Craig A. Aumann and
E. David Ford Modeling Tree Water Flow as an
Unsaturated Flow through a Porous Medium 415--429
Craig A. Aumann and
E. David Ford Parameterizing a Model of Douglas Fir
Water Flow Using a Tracheid-level Model 431--462
Rampal S. Etienne and
C. J. Nagelkerke Non-equilibria in Small Metapopulations:
Comparing the Deterministic Levins Model
with its Stochastic Counterpart . . . . 463--478
Birgit Erni and
Felix Liechti and
Bruno Bruderer Stopover Strategies in Passerine Bird
Migration: a Simulation Study . . . . . 479--493
Mario Pineda-Krch and
Kari Lehtilä Cell Lineage Dynamics in Stratified
Shoot Apical Meristems . . . . . . . . . 495--505
Jonathan G. Hillier and
A. Nicholas E. Birch Travelling Waves of Resistance in a
Bi-trophic Pest Adaptation Model . . . . 507--519
Jean Lehmann Amplification of the Sequences
Displaying the Pattern RNY in the RNA
World: the Translation $ \to $
Translation/Replication Hypothesis . . . 521--537
Wentian Li and
Yaning Yang Zipf's Law in Importance of Genes for
Cancer Classification Using Microarray
Data . . . . . . . . . . . . . . . . . . 539--551
João Dinis De Sousa Are Genes for Fetal Over-exploitation
Outlaws? . . . . . . . . . . . . . . . . 553--554
Anonymous Pages 415--554 (21 December 2002) . . . ??
Timothy E. Allen and
Bernhard ò. Palsson Sequence-Based Analysis of Metabolic
Demands for Protein Synthesis in
Prokaryotes . . . . . . . . . . . . . . 1--18
Reiner A. Veitia Nonlinear Effects in Macromolecular
Assembly and Dosage Sensitivity . . . . 19--25
M. Aldana-González and
G. Cocho and
H. Larralde and
G. Martínez-Mekler Translocation Properties of Primitive
Molecular Machines and Their Relevance
to the Structure of the Genetic Code . . 27--45
Steffen Huck and
Hans-Theo Normann and
Jörg Oechssler Zero-Knowledge Cooperation in Dilemma
Games . . . . . . . . . . . . . . . . . 47--54
Seiji Ono and
Kazuharu Misawa and
Kazuki Tsuji Effect of Group Selection on the
Evolution of Altruistic Behavior . . . . 55--66
Lee Alan Dugatkin and
Michael Perlin and
Ronald Atlas The Evolution of Group-beneficial Traits
in the Absence of Between-group
Selection . . . . . . . . . . . . . . . 67--74
J. Grasman and
J. W. Brascamp and
J. L. Van Leeuwen and
B. Van Putten The Multifractal Structure of Arterial
Trees . . . . . . . . . . . . . . . . . 75--82
Chung-Seon Yi and
Aaron L. Fogelson and
James P. Keener and
Charles S. Peskin A Mathematical Study of Volume Shifts
and Ionic Concentration Changes during
Ischemia and Hypoxia . . . . . . . . . . 83--106
Takuyo Aita and
Yuzuru Husimi Statistical Formulae of the Energy
Distribution among a Globular Protein
Structure Ensemble . . . . . . . . . . . 107--121
Carole J. Proctor and
Mark Broom and
Graeme D. Ruxton A Communication-Based Spatial Model of
Antipredator Vigilance . . . . . . . . . 123--137
Anonymous Pages 1--137 (7 January 2003) . . . . . ??
Michael F. Bruist and
Eric Myers Discrete and Continuous Mathematical
Models of DNA Branch Migration . . . . . 139--156
Mark A. Changizi Relationship between Number of Muscles,
Behavioral Repertoire Size, and
Encephalization in Mammals . . . . . . . 157--168
Benjamin Kerr and
Marcus W. Feldman Carving the Cognitive Niche: Optimal
Learning Strategies in Homogeneous and
Heterogeneous Environments . . . . . . . 169--188
Gauri R. Pradhan and
Sagar A. Pandit and
Anil D. Gangal and
V. Sitaramam Shape anisotropy of lipid molecules and
Voids . . . . . . . . . . . . . . . . . 189--199
Trachette L. Jackson Intracellular Accumulation and Mechanism
of Action of Doxorubicin in a
Spatio-temporal Tumor Model . . . . . . 201--213
Hiroyuki Yokomizo and
Jin Yamashita and
Yoh Iwasa Optimal Conservation Effort for a
Population in a Stochastic Environment 215--231
P. Etchegoin and
M. Nöllmann A Model for Protein--DNA Interaction
Dynamics . . . . . . . . . . . . . . . . 233--239
H. Allen Orr A Minimum on the Mean Number of Steps
Taken in Adaptive Walks . . . . . . . . 241--247
R. Steck and
P. Niederer and
M. L. Knothe Tate A Finite Element Analysis for the
Prediction of Load-induced Fluid Flow
and Mechanochemical Transduction in Bone 249--259
R. Bundschuh and
F. Hayot and
C. Jayaprakash The Role of Dimerization in Noise
Reduction of Simple Genetic Networks . . 261--269
R. Bruce Martin Fatigue Damage, Remodeling, and the
Minimization of Skeletal Weight . . . . 271--276
Anonymous Pages 139--276 (21 January 2003) . . . . ??
M. Haeri and
D. Asemani and
Sh. Gharibzadeh Modeling of Pain Using Artificial Neural
Networks . . . . . . . . . . . . . . . . 277--284
Wolfgang Schreiner and
Rudolf Karch and
Martin Neumann and
Friederike Neumann and
Susanne M. Roedler and
Georg Heinze Heterogeneous Perfusion is a Consequence
of Uniform Shear Stress in Optimized
Arterial Tree Models . . . . . . . . . . 285--301
Joseph J. Luczkovich and
Stephen P. Borgatti and
Jeffrey C. Johnson and
Martin G. Everett Defining and Measuring Trophic Role
Similarity in Food Webs Using Regular
Equivalence . . . . . . . . . . . . . . 303--321
R. J. P. Williams and
J. J. R. Fraústo Da Silva Evolution was Chemically Constrained . . 323--343
Richard Mcelreath Reputation and the Evolution of Conflict 345--357
Youhei Fujitani and
Ichizo Kobayashi Asymmetric Random Walk in a Reaction
Intermediate of Homologous Recombination 359--370
M. Sismilich and
M. I. Menzies and
P. W. Gandar and
P. E. Jameson and
J. Clemens Development of a Mathematical Method for
Classifying and Comparing Tree
Architecture Using Parameters from a
Topological Model of a Trifurcating
Botanical Tree . . . . . . . . . . . . . 371--391
Addy Pross The Driving Force for Life's Emergence:
Kinetic and Thermodynamic Considerations 393--406
Anonymous Pages 277--406 (7 February 2003) . . . . ??
Herbert Gintis The Hitchhiker's Guide to Altruism:
Gene-culture Coevolution, and the
Internalization of Norms . . . . . . . . 407--418
Matthew V. Thompson and
N. Michele Holbrook Application of a Single-solute
Non-steady-state Phloem Model to the
Study of Long-distance Assimilate
Transport . . . . . . . . . . . . . . . 419--455
Stuart A. Samuel and
Gezhi Weng Characterization of a Branch of the
Phylogenetic Tree . . . . . . . . . . . 457--468
Dusan Lazár Chlorophyll a Fluorescence Rise Induced
by High Light Illumination of
Dark-adapted Plant Tissue Studied by
Means of a Model of Photosystem II and
Considering Photosystem II Heterogeneity 469--503
Günter P. Wagner and
Peter F. Stadler Quasi-Independence, Homology and the
Unity of Type: a Topological Theory of
Characters . . . . . . . . . . . . . . . 505--527
Jan T. Kim and
Thomas Martinetz and
Daniel Polani Bioinformatic Principles Underlying the
Information Content of Transcription
Factor Binding Sites . . . . . . . . . . 529--544
Philip Hahnfeldt and
Judah Folkman and
Lynn Hlatky Minimizing Long-Term Tumor Burden: The
Logic for Metronomic Chemotherapeutic
Dosing and its Antiangiogenic Basis . . 545--554
Anonymous Pages 407--554 (21 February 2003) . . . ??
D. V. O'Toole and
P. A. Robinson and
M. R. Myerscough Self-organized Criticality in Ant Brood
Tending . . . . . . . . . . . . . . . . 1--14
D. V. O'Toole and
P. A. Robinson and
M. R. Myerscough Self-Organized Criticality and Emergent
Oscillations in Models of Termite
Architecture with Crowding . . . . . . . 15--27
M. Rosandi\'c and
V. Paar and
I. Basar Key-String Segmentation Algorithm and
Higher-Order Repeat 16mer (54 copies) in
Human Alpha Satellite DNA in Chromosome
7 . . . . . . . . . . . . . . . . . . . 29--37
Toshiyuki Nakajima Probabilities of Encounters between
Objects in Biological Systems 2:
Cognizer View . . . . . . . . . . . . . 39--51
Georg Nöldeke and
Larry Samuelson Strategic Choice Handicaps When Females
Seek High Male Net Viability . . . . . . 53--59
Derik Castillo and
Jorge X. Velasco-Hernández Coexistence in a Competitive
Parasitoid-host System . . . . . . . . . 61--77
Hartmut Kuthan A Mathematical Model of Single Target
Site Location by Brownian Movement in
Subcellular Compartments . . . . . . . . 79--87
H. X. Zhu and
J. R. Melrose A Mechanics Model for the Compression of
Plant and Vegetative Tissues . . . . . . 89--101
Michael A. Fishman and
Lewi Stone and
Arnon Lotem Fertility Assurance through Extrapair
Fertilizations and Male Paternity
Defense . . . . . . . . . . . . . . . . 103--114
Yu-Dong Cai and
Xiao-Jun Liu and
Xue-Biao Xu and
Kuo-Chen Chou Support Vector Machines for Prediction
of Protein Domain Structural Class . . . 115--120
K. Glass and
B. T. Grenfell Antibody Dynamics in Childhood Diseases:
Waning and Boosting of Immunity and the
Impact of Vaccination . . . . . . . . . 121--131
Pierre-André Doriot Some Unusual Considerations about Vessel
Walls and Wall Stresses . . . . . . . . 133--141
Jonathan C. K. Wells The Thrifty Phenotype Hypothesis:
Thrifty Offspring or Thrifty Mother? . . 143--161
Anonymous Pages 1--161 (7 March 2003) . . . . . . ??
J. W. Durkee and
P. P. Antich and
M. A. Lewis and
R. W. Parkey A Fully Coupled Binary Biochemical
Reactive-diffusion Model with Analytic
Solution . . . . . . . . . . . . . . . . 163--191
Michael B. Bonsall The role of Variability and Risk on the
Persistence of Shared-enemy,
Predator-prey Assemblages . . . . . . . 193--204
Wei-Yin Chen and
Phanidhar R. Annamreddy and
L. T. Fan Modeling Growth of a Heterogeneous Tumor 205--227
Tomoyoshi Yoshigaki Why Does a Cleavage Plane Develop
Parallel to the Spindle Axis in Conical
Sand Dollar Eggs? A Key Question for
Clarifying the Mechanism of Contractile
Ring Positioning . . . . . . . . . . . . 229--244
Gary J. Kargacin Responses of Ca$^{2+}$-binding Proteins
to Localized, Transient Changes in
Intracellular [Ca$^{2+}$] . . . . . . . 245--258
Djordje L. Nikolic and
Daniel J. Lacks Size Scaling of Mutation Avalanches in a
Model for Protein Evolution . . . . . . 259--267
Steven S.-S. Wang and
Vasiliki Kazantzi and
Theresa A. Good A Kinetic Analysis of the Mechanism of $
\beta $-Amyloid Induced G Protein
Activation . . . . . . . . . . . . . . . 269--278
P. Seiler and
A. Pant and
J. K. Hedrick A Systems Interpretation for
Observations of Bird V-formations . . . 279--287
Shusaku Tohya and
Atsushi Mochizuki and
Yoh Iwasa Difference in the Retinal Cone Mosaic
Pattern Between Zebrafish and Medaka:
Cell-Rearrangement Model . . . . . . . . 289--300
Anastassia M. Makarieva and
Victor G. Gorshkov and
Bai-Lian Li A Note on Metabolic Rate Dependence on
Body Size in Plants and Animals . . . . 301--307
Anonymous Pages 163--307 (21 March 2003) . . . . . ??
Markus W. Covert and
Bernhard O. Palsson Constraints-based models: Regulation of
Gene Expression Reduces the Steady-state
Solution Space . . . . . . . . . . . . . 309--325
Szabolcs Számadó Threat Displays are not Handicaps . . . 327--348
Gennady Bocharov and
Paul Klenerman and
Stephan Ehl Modelling the Dynamics of LCMV Infection
in Mice: II. Compartmental Structure and
Immunopathology . . . . . . . . . . . . 349--378
Tetsuya Kobayashi and
Luonan Chen and
Kazuyuki Aihara Modeling Genetic Switches with Positive
Feedback Loops . . . . . . . . . . . . . 379--399
Joshua L. Cherry Genome Size and Operon Content . . . . . 401--410
Atsushi Yamauchi and
Yukiko Kamite Facultative Sexual Reproduction Under
Frequency-Dependent Selection on a
Single Locus . . . . . . . . . . . . . . 411--424
Massimo Di Giulio The Universal Ancestor was a Thermophile
or a Hyperthermophile: Tests and Further
Evidence . . . . . . . . . . . . . . . . 425--436
Hans-Uno Bengtsson and
Patrik Edén A Simple Model for the Arterial System 437--443
Natalia L. Komarova and
Martin A. Nowak Language Dynamics in Finite Populations 445--457
Anonymous Pages 309--457 (7 April 2003) . . . . . ??
Ryohji Takano and
Atsushi Mochizuki and
Yoh Iwasa Possibility of Tissue Separation Caused
by Cell Adhesion . . . . . . . . . . . . 459--474
Antonio S. Torralba and
Yoel Rodriguez and
Francisco Montero Phenomenological Definition of Response
Times with Application to Metabolic
Reactions . . . . . . . . . . . . . . . 475--489
Hongyun Wang and
Charles S. Peskin and
Timothy C. Elston A Robust Numerical Algorithm for
Studying Biomolecular Transport
Processes . . . . . . . . . . . . . . . 491--511
M. E. Gracheva and
J. D. Gunton Intercellular Communication Via
Intracellular Calcium Oscillations . . . 513--518
Sonya J. Snedecor Comparison of three Kinetic Models of
HIV-1 Infection: Implications for
Optimization of Treatment . . . . . . . 519--541
L. H. Pojoga and
R. H. Hilderman A Theoretical and Experimental Approach
to the Use of Single Wavelength Calcium
Indicators . . . . . . . . . . . . . . . 543--557
Jon F. Wilkins and
David Haig Inbreeding, Maternal Care and Genomic
Imprinting . . . . . . . . . . . . . . . 559--564
Graham J. Capps and
David C. Samuels and
Patrick F. Chinnery A Model of the Nuclear Control of
Mitochondrial DNA Replication . . . . . 565--583
Rustom Antia and
Carl T. Bergstrom and
Sergei S. Pilyugin and
Susan M. Kaech and
Rafi Ahmed Models of CD8+ Responses: 1. What is the
Antigen-independent Proliferation
Program . . . . . . . . . . . . . . . . 585--598
Takuyo Aita and
Motonori Ota and
Yuzuru Husimi An in silico Exploration of the Neutral
Network in Protein Sequence Space . . . 599--613
Hubert Hug and
Rainer Schuler Measurement of the Number of Molecules
of a Single mRNA Species in a Complex
mRNA Preparation . . . . . . . . . . . . 615--624
Yuri Lyubich and
Valery Kirzhner Mathematical Frameworks for Phenotypical
Selection and Epistasis . . . . . . . . 625--638
Christophe Lett and
Pierre Auger and
Rafael Bravo De La Parra Migration Frequency and the Persistence
of Host--Parasitoid Interactions . . . . 639--654
Erik M. Rauch and
Hiroki Sayama and
Yaneer Bar-Yam Dynamics and Genealogy of Strains in
Spatially Extended Host--Pathogen Models 655--664
François Rousset A Minimal Derivation of Convergence
Stability Measures . . . . . . . . . . . 665--668
R. P. Bywater and
A. Sorensen and
P. Rogen and
P. G. Hjorth ``Construction of the Simplest Model to
Explain Complex Receptor Activation
Kinetics'' [Journal of Theoretical
Biology \bf 218 (2002) 139--147] . . . . 669--669
G. K. Taylor and
A. L. R. Thomas ``Animal Flight Dynamics II.
Longitudinal Stability in Flapping
flight'' [Journal of Theoretical Biology
\bf 214 (2002) 351--370] . . . . . . . . 671--671
Anonymous Pages 459--671 (21 April 2003) . . . . . ??
Andrew M. Gregson and
Adam G. Hart and
Michael Holcombe and
Francis L. W. Ratnieks Partial nectar loads as a cause of
multiple nectar transfer in the honey
bee (\bionameApis mellifera): a
simulation model . . . . . . . . . . . . 1--8
Can Kesmir and
Rob J. De Boer A spatial model of germinal center
reactions: cellular adhesion based
sorting of B cells results in efficient
affinity maturation . . . . . . . . . . 9--22
Brian P. Ingalls and
Herbert M. Sauro Sensitivity analysis of stoichiometric
networks: an extension of metabolic
control analysis to non-steady state
trajectories . . . . . . . . . . . . . . 23--36
Stefan Berking A model for budding in hydra: pattern
formation in concentric rings . . . . . 37--52
Becca Asquith and
Charles R. M. Bangham The dynamics of T-cell fratricide:
application of a robust approach to
mathematical modelling in immunology . . 53--69
John C. McLachlan and
Helen Storey Hot male: can sex in humans be modified
by temperature? . . . . . . . . . . . . 71--72
D. M. Lewis Planktonic encounter rates in
homogeneous isotropic turbulence: the
case of predators with limited fields of
sensory perception . . . . . . . . . . . 73--97
Moisés Santillán and
Ricardo Hernández-Pérez and
Rodolfo Delgado-Lezama A numeric study of the noise-induced
tremor in a mathematical model of the
stretch reflex . . . . . . . . . . . . . 99--115
R. Ernesto Blanco and
Rodolfo Gambini and
Richard A. Fariña Mechanical model for theoretical
determination of maximum running speed
in mammals . . . . . . . . . . . . . . . 117--125
Jason P. Dworkin and
Antonio Lazcano and
Stanley L. Miller The roads to and from the RNA world . . 127--134
Juan Armando Sánchez and
Wei Zeng and
Vitor R. Coluci and
Carl Simpson and
Howard R. Lasker How similar are branching networks in
nature? A view from the ocean: Caribbean
gorgonian corals . . . . . . . . . . . . 135--138
Anonymous IFC-Editorial board . . . . . . . . . . ifc--ifc
Anonymous Pages 1--138 (7 May 2003) . . . . . . . ??
Fumihiko Takeuchi and
Yasuhiro Futamura and
Hiroshi Yoshikura and
Kenji Yamamoto Statistics of trinucleotides in coding
sequences and evolution . . . . . . . . 139--149
Jianfeng Feng Effects of correlated and synchronized
stochastic inputs to leaky integrator
neuronal model . . . . . . . . . . . . . 151--162
P. A. Robinson Neurophysical theory of coherence and
correlations of electroencephalographic
and electrocorticographic signals . . . 163--175
V. R. Chechetkin Block structure and stability of the
genetic code . . . . . . . . . . . . . . 177--188
Carlo Ricotta On parametric evenness measures . . . . 189--197
Romualdo Pastor-Satorras and
Eric Smith and
Ricard V. Solé Evolving protein interaction networks
through gene duplication . . . . . . . . 199--210
Alain Goriely and
Michael Tabor Biomechanical models of hyphal growth in
actinomycetes . . . . . . . . . . . . . 211--218
S. J. Powers and
P. Brain and
P. W. Barlow First-order differential equation models
with estimable parameters as functions
of environmental variables and their
application to a study of vascular
development in young hybrid aspen stems 219--232
Ross Cressman and
József Garay Evolutionary stability in
Lotka--Volterra systems . . . . . . . . 233--245
Mark Zajac and
Gerald L. Jones and
James A. Glazier Simulating convergent extension by way
of anisotropic differential adhesion . . 247--259
Juan Carlos Letelier and
Gonzalo Marín and
Jorge Mpodozis Autopoietic and $ (M, R) $ systems . . . 261--272
Anonymous IFC-Editorial board . . . . . . . . . . ifc--ifc
Anonymous Pages 139--272 (21 May 2003) . . . . . . ??
Jarle Tufto and
Kjetil Hindar Effective size in management and
conservation of subdivided populations 273--281
Akiko Sakai and
Satoki Sakai Size-dependent ESS sex allocation in
wind-pollinated cosexual plants:
fecundity vs. stature effects . . . . . 283--295
József Garay and
Zoltán Varga Coincidence of ESAD and ESS in
dominant-recessive hereditary systems 297--305
Jason Shoemaker and
Gregory T. Reeves and
Shakti Gupta and
Sergei S. Pilyugin and
Thomas Egli and
Atul Narang The dynamics of single-substrate
continuous cultures: the role of
transport enzymes . . . . . . . . . . . 307--322
David M. Prescott and
A. Ehrenfeucht and
G. Rozenberg Template-guided recombination for IES
elimination and unscrambling of genes in
stichotrichous ciliates . . . . . . . . 323--330
James A. R. Marshall and
Jonathan E. Rowe Kin selection may inhibit the evolution
of reciprocation . . . . . . . . . . . . 331--335
J. T. Ottesen and
M. Danielsen Modeling ventricular contraction with
heart rate changes . . . . . . . . . . . 337--346
Nico Stollenwerk and
Vincent A. A. Jansen Meningitis, pathogenicity near
criticality: the epidemiology of
meningococcal disease as a model for
accidental pathogens . . . . . . . . . . 347--359
William I. Newman and
Jorge A. Lazareff A mathematical model for self-limiting
brain tumors . . . . . . . . . . . . . . 361--371
David H. Brown and
Alan Hastings Resistance may be futile: dispersal
scales and selection for disease
resistance in competing plants . . . . . 373--388
M. Xavier Suresh and
K. Veluraja Conformations of terminal
sialyloligosaccharide fragments --- a
molecular dynamics study . . . . . . . . 389--402
Jocelyn A. Laurence and
David R. McKenzie and
Kenneth R. Foster Application of the heat equation to the
calculation of temperature rises from
pulsed microwave exposure . . . . . . . 403--405
Anonymous IFC-Editorial board . . . . . . . . . . ifc--ifc
Anonymous Pages 273--406 (7 June 2003) . . . . . . ??
Anonymous Author Index for Volume 222 . . . . . . I--II
Anonymous Subject Index for Volume 222 . . . . . . III--VII
Qingwu Yang and
Paul A. Lindahl and
Jeffrey J. Morgan Dynamic responses of protein homeostatic
regulatory mechanisms to perturbations
from steady state . . . . . . . . . . . 407--423
Laura G. Perry and
Claudia Neuhauser and
Susan M. Galatowitsch Founder control and coexistence in a
simple model of asymmetric competition
for light . . . . . . . . . . . . . . . 425--436
Juan Lin and
Viggo Andreasen and
Renato Casagrandi and
Simon A. Levin Traveling waves in a model of influenza
A drift . . . . . . . . . . . . . . . . 437--445
Jinya Otsuka and
Nobuyoshi Sugaya Advanced formulation of base pair
changes in the stem regions of ribosomal
RNAs; its application to mitochondrial
rRNAs for resolving the phylogeny of
animals . . . . . . . . . . . . . . . . 447--460
Mayuko Nakamaru and
Akira Sasaki Can transitive inference evolve in
animals playing the hawk-dove game? . . 461--470
Gordon Simons and
Glenn Morton The gene-orientation structure of
eukaryotes . . . . . . . . . . . . . . . 471--475
Charles Ofria and
Christoph Adami and
Travis C. Collier Selective pressures on genomes in
molecular evolution . . . . . . . . . . 477--483
Sean Ellermeyer and
Jerald Hendrix and
Nariman Ghoochan A theoretical and empirical
investigation of delayed growth response
in the continuous culture of bacteria 485--494
Takashi Kunisawa Gene arrangements and branching orders
of gram-positive bacteria . . . . . . . 495--503
Atsushi Yamauchi Factors affecting binary sex evolution
with respect to avoidance of vertical
transmission of deleterious
intracellular parasites . . . . . . . . 505--515
Brian D. Fath and
Heriberto Cabezas and
Christopher W. Pawlowski Regime changes in ecological systems: an
information theory approach . . . . . . 517--530
Anonymous IFC-Editorial board . . . . . . . . . . ifc--ifc
Anonymous Pages EX1--EX2, 407--530 (21 June 2003) ??
Réka Albert and
Hans G. Othmer The topology of the regulatory
interactions predicts the expression
pattern of the segment polarity genes in
\bionameDrosophila melanogaster . . . . 1--18
K. Glass and
Y. Xia and
B. T. Grenfell Interpreting time-series analyses for
continuous-time biological
models-measles as a case study . . . . . 19--25
Joji M. Otaki and
Haruhiko Yamamoto Length analyses of Drosophila odorant
receptors . . . . . . . . . . . . . . . 27--37
Graeme J. Ackland and
Michael A. Clark and
Timothy M. Lenton Catastrophic desert formation in
Daisyworld . . . . . . . . . . . . . . . 39--44
Stefan Wuchty and
Peter F. Stadler Centers of complex networks . . . . . . 45--53
Eberhard O. Voit Biochemical and genomic regulation of
the trehalose cycle in yeast: review of
observations and canonical model
analysis . . . . . . . . . . . . . . . . 55--78
Michael R. Heithaus and
Alejandro Frid Optimal diving under the risk of
predation . . . . . . . . . . . . . . . 79--92
G. Lemon and
W. G. Gibson and
M. R. Bennett Metabotropic receptor activation,
desensitization and sequestration --- I:
modelling calcium and inositol
1,4,5-trisphosphate dynamics following
receptor activation . . . . . . . . . . 93--111
G. Lemon and
W. G. Gibson and
M. R. Bennett Metabotropic receptor activation,
desensitization and sequestration ---
II: modelling the dynamics of the
pleckstrin homology domain . . . . . . . 113--129
John T. Manning and
Peter E. Bundred and
P. Henzi Melanin and HIV in sub-Saharan Africa 131--133
Anonymous IFC-Editorial board . . . . . . . . . . ifc--ifc
Anonymous Pages 1--134 (7 July 2003) . . . . . . . ??
Samuel Bowles and
Jung-Kyoo Choi and
Astrid Hopfensitz The co-evolution of individual behaviors
and social institutions . . . . . . . . 135--147
Emi Shudo and
Patsy Haccou and
Yoh Iwasa Optimal choice between feedforward and
feedback control in gene expression to
cope with unpredictable danger . . . . . 149--160
H.-M. Müller and
S. E. Koonin Vector space classification of DNA
sequences . . . . . . . . . . . . . . . 161--169
Q. J. A. Khan and
A. F. Ghaleb A study of prey-predator relations for
mammals . . . . . . . . . . . . . . . . 171--178
Melissa D. Cox and
Mary R. Myerscough A flexible model of foraging by a honey
bee colony: the effects of individual
behaviour on foraging success . . . . . 179--197
Wei-Mou Zheng and
Fang Wu In-phase implies large likelihood for
independent codon model: distinguishing
coding from non-coding sequences . . . . 199--203
Alexander Kamb Mutation load, functional overlap, and
synthetic lethality in the evolution and
treatment of cancer . . . . . . . . . . 205--213
Mary V. Price and
John E. Mittler Seed-cache exchange promotes coexistence
and coupled consumer oscillations: a
model of desert rodents as resource
processors . . . . . . . . . . . . . . . 215--231
James P. Keener and
Eric Cytrynbaum The effect of spatial scale of resistive
inhomogeneity on defibrillation of
cardiac tissue . . . . . . . . . . . . . 233--248
Moisés Santillán Allometric scaling law in a simple
oxygen exchanging network: possible
implications on the biological
allometric scaling laws . . . . . . . . 249--257
K. L. Goh and
D. W. L. Hukins and
R. M. Aspden Critical length of collagen fibrils in
extracellular matrix . . . . . . . . . . 259--261
Jayanth R. Banavar and
Amos Maritan A comment on the protein folds as
platonic forms . . . . . . . . . . . . . 263--265
Julic C. Fox and
Tony M. Keaveny Erratum to ``Trabecular eccentricity and
bone adaptation'': [J. Theor. Biol. \bf
212, 211--221] . . . . . . . . . . . . . 267--267
Anonymous IFC --- Editorial Board . . . . . . . . ifc--ifc
Anonymous Pages 135--268 (21 July 2003) . . . . . ??
Mark W. Westneat A biomechanical model for analysis of
muscle force, power output and lower jaw
motion in fishes . . . . . . . . . . . . 269--281
Samuel Bernard and
Jacques Bélair and
Michael C. Mackey Oscillations in cyclical neutropenia:
new evidence based on mathematical
modeling . . . . . . . . . . . . . . . . 283--298
Bengt Nölting and
Wolfram Schälike and
Patrick Hampel and
Florian Grundig and
Siegfried Gantert and
Nicole Sips and
Wolfhard Bandlow and
Phoebe X. Qi Structural determinants of the rate of
protein folding . . . . . . . . . . . . 299--307
R. Drummond Does a structural bridge exist between
the DNA and the specialized cytoplasmic
organelles during the early part of
their development? A mechanism for the
positioning of flagella and possibly
other cytoplasmic organelles . . . . . . 309--312
Stéphanie Portet and
Ovide Arino and
Jany Vassy and
Damien Schoëvaërt Organization of the cytokeratin network
in an epithelial cell . . . . . . . . . 313--333
Marco Archetti A selfish origin for recombination . . . 335--346
Bakhtier Vasiev and
Cornelis J. Weijer Modelling of \bionameDictyostelium
discoideum slug migration . . . . . . . 347--359
Michael Boots and
Roger G. Bowers Baseline criteria and the evolution of
hosts and parasites: $ D_0 $, $ R_0 $
and competition for resources between
strains . . . . . . . . . . . . . . . . 361--365
Jianfeng Feng and
Guibin Li The relationship between neuronal
calcium concentration and firing rate
during stochastic synaptic inputs . . . 367--375
David Penny and
Michael D. Hendy and
Anthony M. Poole Testing fundamental evolutionary
hypotheses . . . . . . . . . . . . . . . 377--385
R. F. Rosenberger The choice of cell lineages during the
in vitro differentiation of mammalian
embryonic stem cells . . . . . . . . . . 387--389
Anonymous IFC --- Editorial Board . . . . . . . . ifc--ifc
Anonymous Pages 269--390 (7 August 2003) . . . . . ??
Anonymous Author Index for Volume 223 . . . . . . I--II
Anonymous Subject Index for Volume 223 . . . . . . III--VII
Brian M. Murphy and
Benjamin H. Singer and
Denise Kirschner On treatment of tuberculosis in
heterogeneous populations . . . . . . . 391--404
Steven A. Frank Somatic mosaicism and cancer: inference
based on a conditional Luria--Delbrück
distribution . . . . . . . . . . . . . . 405--412
Gabriel Frey and
Christian J. Michel Circular codes in archaeal genomes . . . 413--431
Natalia L. Komarova and
Anirvan Sengupta and
Martin A. Nowak Mutation-selection networks of cancer
initiation: tumor suppressor genes and
chromosomal instability . . . . . . . . 433--450
Gro Vang Amdam and
Stig W. Omholt The hive bee to forager transition in
honeybee colonies: the double repressor
hypothesis . . . . . . . . . . . . . . . 451--464
Emmanuelle Fromont and
Dominique Pontier and
Michel Langlais Disease propagation in connected host
populations with density-dependent
dynamics: the case of the Feline
Leukemia Virus . . . . . . . . . . . . . 465--475
Christoforos Nikolaou and
Yannis Almirantis Mutually symmetric and complementary
triplets: differences in their use
distinguish systematically between
coding and non-coding genomic sequences 477--487
Yutaka Kobayashi and
Norio Yamamura Evolution of signal emission by
non-infested plants growing near
infested plants to avoid future risk . . 489--503
B. Adams and
J. Carr and
T. M. Lenton and
A. White One-dimensional daisyworld: spatial
interactions and pattern formation . . . 505--513
A. Gardner and
S. E. Reece and
S. A. West Even more extreme fertility insurance
and the sex ratios of protozoan blood
parasites . . . . . . . . . . . . . . . 515--521
Mojdeh Mohtashemi and
Lik Mui Evolution of indirect reciprocity by
social information: the role of trust
and reputation in evolution of altruism 523--531
Antonio S. Torralba and
Yoel Rodríguez and
Francisco Montero Corrigendum to ``Phenomenological
definition of response times with
application to metabolic reactions'':
[J. theor. Biol. \bf 221, 475--489] . . 533--533
Antonio S. Torralba and
Yoel Rodríguez and
Francisco Montero Erratum to ``Phenomenological definition
of response times with application to
metabolic reactions'': [J. theor. Biol.
\bf 221, 475--489] . . . . . . . . . . . 535--535
Anonymous IFC --- Editorial Board . . . . . . . . ifc--ifc
Anonymous Pages 391--536 (21 August 2003) . . . . ??
G. Chowell and
P. W. Fenimore and
M. A. Castillo-Garsow and
C. Castillo-Chavez SARS outbreaks in Ontario, Hong Kong and
Singapore: the role of diagnosis and
isolation as a control mechanism . . . . 1--8
Charles A. Long and
G. P. Zhang and
Thomas F. George and
Claudine F. Long Physical theory, origin of flight, and a
synthesis proposed for birds . . . . . . 9--26
M. A. Ball and
G. A. Parker Sperm competition games: sperm selection
by females . . . . . . . . . . . . . . . 27--42
W. Konrad and
A. Roth-Nebelsick The dynamics of gas bubbles in conduits
of vascular plants and implications for
embolism repair . . . . . . . . . . . . 43--61
Hanspeter Kunz and
Peter Achermann Simulation of circadian rhythm
generation in the suprachiasmatic
nucleus with locally coupled
self-sustained oscillators . . . . . . . 63--78
Russell B. Millar and
Marti J. Anderson The kinetics of monospermic and
polyspermic fertilization in
free-spawning marine invertebrates . . . 79--85
Iman Famili and
Bernhard O. Palsson Systemic metabolic reactions are
obtained by singular value decomposition
of genome-scale stoichiometric matrices 87--96
Ernesto Bosatta and
Göran I. Ågren Exact solutions to the
continuous-quality equation for soil
organic matter turnover . . . . . . . . 97--105
John P. Buonaccorsi and
Joseph Elkinton and
Walt Koenig and
Richard P. Duncan and
Dave Kelly and
Victoria Sork Measuring mast seeding behavior:
relationships among population
variation, individual variation and
synchrony . . . . . . . . . . . . . . . 107--114
Karthik Panchanathan and
Robert Boyd A tale of two defectors: the importance
of standing for evolution of indirect
reciprocity . . . . . . . . . . . . . . 115--126
Yinglei Lai and
Fengzhu Sun Microsatellite mutations during the
polymerase chain reaction: mean field
approximations and their applications 127--137
Anonymous IFC --- Editorial Board . . . . . . . . ifc--ifc
Anonymous Pages 1--138 (7 September 2003) . . . . ??
Kris De Jaegher Error-proneness as a handicap signal . . 139--152
Roeland Merks and
Alfons Hoekstra and
Jaap Kaandorp and
Peter Sloot Models of coral growth: spontaneous
branching, compactification and the
Laplacian growth assumption . . . . . . 153--166
Hiroyuki Yokomizo and
Patsy Haccou and
Yoh Iwasa Conservation effort and assessment of
population size in fluctuating
environments . . . . . . . . . . . . . . 167--182
Simcha Lev-Yadun Weapon (thorn) automimicry and mimicry
of aposematic colorful thorns in plants 183--188
C. J. Pennycuick The concept of energy height in animal
locomotion: separating mechanics from
physiology . . . . . . . . . . . . . . . 189--203
M. J. Brennan and
S. J. Elliott and
P. Bonello and
J. F. V. Vincent The ``click'' mechanism in dipteran
flight: if it exists, then what effect
does it have? . . . . . . . . . . . . . 205--213
M. C. Lagomarsino and
F. Capuani and
C. P. Lowe A simulation study of the dynamics of a
driven filament in an Aristotelian fluid 215--224
Marcello Lappa The growth and the fluid dynamics of
protein crystals and soft organic
tissues: models and simulations,
similarities and differences . . . . . . 225--240
Akira Sasaki and
Martin A. Nowak Mutation landscapes . . . . . . . . . . 241--247
Hugo A. van den Berg and
David A. Rand Antigen presentation on MHC molecules as
a diversity filter that enhances immune
efficacy . . . . . . . . . . . . . . . . 249--267
A. Korobeinikov and
P. K. Maini and
W. J. Walker Estimation of effective vaccination
rate: pertussis in New Zealand as a case
study . . . . . . . . . . . . . . . . . 269--275
Anonymous IFC --- Editorial Board . . . . . . . . ifc--ifc
Anonymous Pages 139--276 (21 September 2003) . . . ??
Massimo Di Giulio The ancestor of the Bacteria domain was
a hyperthermophile . . . . . . . . . . . 277--283
Markku J. Lampinen and
Tuula Noponen Thermodynamic analysis of the
interaction of the xylem water and
phloem sugar solution and its
significance for the cohesion theory . . 285--298
Peter Jagers and
Fima Klebaner Random variation and concentration
effects in PCR . . . . . . . . . . . . . 299--304
Chunfang Wei and
Philip M. Lintilhac Loss of stability --- a new model for
stress relaxation in plant cell walls 305--312
Sharon J. Wiback and
Radhakrishnan Mahadevan and
Bernhard Ò. Palsson Reconstructing metabolic flux vectors
from extreme pathways: defining the $
\alpha $-spectrum . . . . . . . . . . . 313--324
Yuri Mansury and
Thomas S. Deisboeck The impact of ``search precision'' in an
agent-based tumor model . . . . . . . . 325--337
Hiroto Shoji and
Yoh Iwasa and
Shigeru Kondo Stripes, spots, or reversed spots in
two-dimensional Turing systems . . . . . 339--350
Bas E. Dutilh and
Rob J. de Boer Decline in excision circles requires
homeostatic renewal or homeostatic death
of naive T cells . . . . . . . . . . . . 351--358
Roberto Ros\`a and
Andrea Pugliese and
Rachel Norman and
Peter J. Hudson Thresholds for disease persistence in
models for tick-borne infections
including non-viraemic transmission,
extended feeding and tick aggregation 359--376
Avinoam Rabinovitch and
Ira Aviram and
Arieh Zaritsky Bacterial debris --- an ecological
mechanism for coexistence of bacteria
and their viruses . . . . . . . . . . . 377--383
Christoph Giersch Stationary diffusion gradients
associated with photosynthetic carbon
flux --- a study of compartmental versus
diffusion-reaction models . . . . . . . 385--397
Johan H. Koeslag and
Elmarie Terblanche Evolution of cooperation: cooperation
defeats defection in the cornfield model 399--410
N. Rezaei-Ghaleh Signaling in biological systems:
insights from communication theory . . . 411--412
Anonymous IFC --- Editorial Board . . . . . . . . ifc--ifc
Anonymous Pages EX1--EX2, 277--412 (7 October
2003) . . . . . . . . . . . . . . . . . ??
Anonymous Author Index for Volume 224 . . . . . . I--II
Anonymous Subject Index for Volume 224 . . . . . . III--VIII
Chikara Furusawa and
Kunihiko Kaneko Robust development as a consequence of
generated positional information . . . . 413--435
Stephen J. Van Dien and
Victor de Lorenzo Deciphering environmental signal
integration in $ \sigma 54 $-dependent
promoters with a simple mathematical
model . . . . . . . . . . . . . . . . . 437--449
Hiro-Sato Niwa Power-law versus exponential
distributions of animal group sizes . . 451--457
Olivier Cinquin Is the somitogenesis clock really
cell-autonomous? A coupled-oscillator
model of segmentation . . . . . . . . . 459--468
Jan Tullberg Rationality and social behavior . . . . 469--478
Sönke Hardersen and
Chris Frampton The influence of differential survival
on the distribution of fluctuating
asymmetry --- a modelling approach . . . 479--482
Simcha Lev-Yadun Why do some thorny plants resemble green
zebras? . . . . . . . . . . . . . . . . 483--489
Marko Marhl and
Stefan Schuster Under what conditions signal
transduction pathways are highly
flexible in response to external
forcing? A case study on calcium
oscillations . . . . . . . . . . . . . . 491--500
R. R. Sarkar and
J. Chattopadhayay Occurrence of planktonic blooms under
environmental fluctuations and its
possible control mechanism-mathematical
models and experimental observations . . 501--516
Lucas Sánchez and
Denis Thieffry Segmenting the fly embryo: a logical
analysis of the pair-rule
cross-regulatory module . . . . . . . . 517--537
T. Kirner and
J. Ackermann Pattern selection in a cooperative
biochemical in vitro amplification
system: the role of parasites . . . . . 539--549
V. B. Kokshenev and
J. K. L. Silva and
G. J. M. Garcia Long-bone allometry of terrestrial
mammals and the geometric-shape and
elastic-force constraints of bone
evolution . . . . . . . . . . . . . . . 551--556
Anonymous IFC --- Editorial Board . . . . . . . . ifc--ifc
Anonymous Pages EX1--EX2, 413--556 (21 October
2003) . . . . . . . . . . . . . . . . . ??
Shizuka Minami and
Akira Azuma Various flying modes of wind-dispersal
seeds . . . . . . . . . . . . . . . . . 1--14
Scott Hotton Finding the center of a phyllotactic
pattern . . . . . . . . . . . . . . . . 15--32
Danuta Wlodek and
Michael Gonzales Decreased energy levels can cause and
sustain obesity . . . . . . . . . . . . 33--44
Andreas Wagner Risk management in biological evolution 45--57
Rinaldo B. Schinazi On the role of reinfection in the
transmission of infectious diseases . . 59--63
D. Taylor and
J. G. Hazenberg and
T. C. Lee The cellular transducer in
damage-stimulated bone remodelling: a
theoretical investigation using fracture
mechanics . . . . . . . . . . . . . . . 65--75
Patsy Haccou and
Olivier Glaizot and
Chris Cannings Patch leaving strategies and
superparasitism: an asymmetric
generalized war of attrition . . . . . . 77--89
Atsushi Komoto and
Ken-ichi Hanaki and
Shinya Maenosono and
Joe Yuichiro Wakano and
Yukio Yamaguchi and
Kenji Yamamoto Growth dynamics of Bacillus circulans
colony . . . . . . . . . . . . . . . . . 91--97
Karsten Brensing and
Katrin Linke and
Dietmar Todt Can dolphins heal by ultrasound? . . . . 99--105
Kalet León and
Agustin Lage and
Jorge Carneiro Tolerance and immunity in a mathematical
model of T-cell mediated suppression . . 107--126
Ole Lajord Munk and
Susanne Keiding and
Ludvik Bass Capillaries within compartments:
microvascular interpretation of dynamic
positron emission tomography data . . . 127--141
Harvey J. Kliman and
Lee Segel The placenta may predict the baby . . . 143--145
Anonymous IFC --- Editorial Board . . . . . . . . ifc--ifc
Anonymous Pages 1--146 (7 November 2003) . . . . . ??
Caterina Guiot and
Piero Giorgio Degiorgis and
Pier Paolo Delsanto and
Pietro Gabriele and
Thomas S. Deisboeck Does tumor growth follow a ``universal
law''? . . . . . . . . . . . . . . . . . 147--151
A. Golubev and
S. Khrustalev and
A. Butov An in silico investigation into the
causes of telomere length heterogeneity
and its implications for the Hayflick
limit . . . . . . . . . . . . . . . . . 153--170
V. Goltsev and
I. Zaharieva and
P. Lambrev and
I. Yordanov and
R. Strasser Simultaneous analysis of prompt and
delayed chlorophyll a fluorescence in
leaves during the induction period of
dark to light adaptation . . . . . . . . 171--183
Nathan D. Price and
Jennifer L. Reed and
Jason A. Papin and
Sharon J. Wiback and
Bernhard O. Palsson Network-based analysis of metabolic
regulation in the human red blood cell 185--194
R. B. Campbell A logistic branching process for
population genetics . . . . . . . . . . 195--203
Joshua S. Weitz and
Daniel H. Rothman Scale-dependence of
resource-biodiversity relationships . . 205--214
Takuyo Aita and
Yuzuru Husimi Thermodynamical interpretation of an
adaptive walk on a Mt. Fuji-type fitness
landscape: Einstein relation-like
formula holds in a stochastic evolution 215--228
Fanyi Shen and
Liu Wenji and
Gao Rongfu and
Huo Hu A careful physical analysis of gas
bubble dynamics in xylem . . . . . . . . 229--233
Simon Benhamou Bicoordinate navigation based on
non-orthogonal gradient fields . . . . . 235--239
Christine Loos and
Ralf Seppelt and
Sara Meier-Bethke and
Joachim Schiemann and
Otto Richter Spatially explicit modelling of
transgenic maize pollen dispersal and
cross-pollination . . . . . . . . . . . 241--255
T. Alarcón and
H. M. Byrne and
P. K. Maini A cellular automaton model for tumour
growth in inhomogeneous environment . . 257--274
Sergei S. Pilyugin and
Vitaly V. Ganusov and
Kaja Murali-Krishna and
Rafi Ahmed and
Rustom Antia The rescaling method for quantifying the
turnover of cell populations . . . . . . 275--283
Anonymous IFC --- Editorial Board . . . . . . . . ifc--ifc
Anonymous Pages 147--284 (21 November 2003) . . . ??
Michael A. Fishman Indirect reciprocity among imperfect
individuals . . . . . . . . . . . . . . 285--292
Nils Blüthgen and
Hanspeter Herzel How robust are switches in intracellular
signaling cascades? . . . . . . . . . . 293--300
Y. Guédon and
P. Heuret and
E. Costes Comparison methods for branching and
axillary flowering sequences . . . . . . 301--325
Kevin J. Painter and
Jonathan A. Sherratt Modelling the movement of interacting
cell populations . . . . . . . . . . . . 327--339
Y. Katz Solubility, adsorption, and the
thermodynamics of the cutoff effect . . 341--349
Raúl Cañas C. and
Roberto A. Quiroz and
Carlos León-Velarde and
Adolfo Posadas and
Javier Osorio Quantifying energy dissipation by
grazing animals in harsh environments 351--359
Tracey H. Joffe and
Timothy J. Cole and
Jonathan C. K. Wells and
Michael P. Geary and
Charles H. Rodeck and
Peter C. Hindmarsh A new method for quantifying
encephalization in the growing
individual . . . . . . . . . . . . . . . 361--367
Xinyi Huang Equilibrium competition binding assay:
inhibition mechanism from a single dose
response . . . . . . . . . . . . . . . . 369--376
Franziska Michor and
Steven A. Frank and
Robert M. May and
Yoh Iwasa and
Martin A. Nowak Somatic selection for and against cancer 377--382
Robert Dorazi Can tRNAs act as antisense RNA? The case
of mutA and dnaQ . . . . . . . . . . . . 383--388
Lars Witting Major life-history transitions by
deterministic directional natural
selection . . . . . . . . . . . . . . . 389--406
M. Zamir Critique of the test of multifractality
as applied to biological data . . . . . 407--412
Shoji Mizuno and
Akiko Mizuno Theoretical examination of the standing
osmotic gradient response to a step
change of the solute influx into the
symplast . . . . . . . . . . . . . . . . 413--417
Anonymous IFC --- Editorial Board . . . . . . . . ifc--ifc
Anonymous Pages 285--418 (7 December 2003) . . . . ??
Steven Riley and
Christl A. Donnelly and
Neil M. Ferguson Robust parameter estimation techniques
for stochastic within-host macroparasite
models . . . . . . . . . . . . . . . . . 419--430
Andrei Borodich and
Igor Rojdestvenski and
Michael Cottam and
Jan Anderson and
Gunnar Öquist Segregation of the photosystems in
higher plant thylakoids and short- and
long-term regulation by a mesoscopic
approach . . . . . . . . . . . . . . . . 431--441
Raphaël Jeanson and
Stéphane Blanco and
Richard Fournier and
Jean-Louis Deneubourg and
Vincent Fourcassié and
Guy Theraulaz A model of animal movements in a bounded
space . . . . . . . . . . . . . . . . . 443--451
Michio Kondoh Habitat fragmentation resulting in
overgrazing by herbivores . . . . . . . 453--460
Thomas MacCarthy and
Robert Seymour and
Andrew Pomiankowski The evolutionary potential of the
Drosophila sex determination gene
network . . . . . . . . . . . . . . . . 461--468
Beatriz Ruiz-Díez and
Patricia Sánchez and
Fernando Baquero and
José L. Martínez and
Alfonso Navas Differential interactions within the
\bionameCaenorhabditis
elegans--\bionamePseudomonas aeruginosa
pathogenesis model . . . . . . . . . . . 469--476
Mark A. Peletier and
Hans V. Westerhoff and
Boris N. Kholodenko Control of spatially heterogeneous and
time-varying cellular reaction networks:
a new summation law . . . . . . . . . . 477--487
Vladimir P. Zhdanov Propagation of infection and the
prey-predator interplay . . . . . . . . 489--492
Avinoam Rabinovitch and
Arieh Zaritsky and
Mario Feingold DNA-membrane interactions can localize
bacterial cell center . . . . . . . . . 493--496
Susanna C. Manrubia and
María Arribas and
Ester Lázaro Supercritical branching processes and
the role of fluctuations under
exponential population growth . . . . . 497--505
Tadashi Masuda An electromechanical model of myosin
molecular motors . . . . . . . . . . . . 507--515
María S. Sánchez and
Alan Hastings Uniform vertical transmission and
selection in a host-symbiont system.
Non-random symbiont distribution
generates apparent differential
selection . . . . . . . . . . . . . . . 517--530
Nick Lane A unifying view of ageing and disease:
the double-agent theory . . . . . . . . 531--540
Dalila Laoudj-Chenivesse and
René Bennes and
Emmanuel Tronel-Peyroz On the flexibility and the dynamics of
DNA . . . . . . . . . . . . . . . . . . 541--543
Anonymous IFC --- Editorial Board . . . . . . . . ifc--ifc
Anonymous Pages 419--544 (21 December 2003) . . . ??
E. T. Bucovaz A proposed mechanism which may explain
why the fetus is not considered to be
foreign tissue by the maternal system
during pregnancy . . . . . . . . . . . . 1--8
Eric Beno\^\it and
Marie-Joëlle Rochet A continuous model of biomass size
spectra governed by predation and the
effects of fishing on them . . . . . . . 9--21
Carolin Banasek-Richter and
Marie-France Cattin and
Louis-Félix Bersier Sampling effects and the robustness of
quantitative and qualitative food-web
descriptors . . . . . . . . . . . . . . 23--32
Michael C. Reed and
H. Frederik Nijhout and
Rachel Sparks and
Cornelia M. Ulrich A mathematical model of the methionine
cycle . . . . . . . . . . . . . . . . . 33--43
Marcio R. Pie and
Rebeca B. Rosengaus and
James F. A. Traniello Nest architecture, activity pattern,
worker density and the dynamics of
disease transmission in social insects 45--51
N. J. B. Driessen and
W. Wilson and
C. V. C. Bouten and
F. P. T. Baaijens A computational model for collagen fibre
remodelling in the arterial wall . . . . 53--64
John T. Hancock and
Radhika Desikan and
Steven J. Neill and
Andrew R. Cross New equations for redox and nano-signal
transduction . . . . . . . . . . . . . . 65--68
Joe Yuichiro Wakano Drastic growth effect may explain
sympatric cannibalistic polymorphism . . 69--77
Kinya Nishimura and
Yutaka Isoda Variant evolutionary trees under
phenotypic variance . . . . . . . . . . 79--87
Massimo Di Giulio The origin of the tRNA molecule:
implications for the origin of protein
synthesis . . . . . . . . . . . . . . . 89--93
Narendra M. Dixit and
Alan S. Perelson Complex patterns of viral load decay
under antiretroviral therapy: influence
of pharmacokinetics and intracellular
delay . . . . . . . . . . . . . . . . . 95--109
Jason R. Pirone and
Timothy C. Elston Fluctuations in transcription factor
binding can explain the graded and
binary responses observed in inducible
gene expression . . . . . . . . . . . . 111--121
Gennady Bocharov and
Paul Klenerman and
Stephan Ehl Erratum to ``Modelling the dynamics of
LCMV infection in mice: II.
Compartmental structure and
immunopathology'': [J. Theor. Biol. \bf
221, 349--378] . . . . . . . . . . . . . 123--123
Anonymous IFC --- Editorial Board . . . . . . . . ifc--ifc
Anonymous Pages 1--124 (7 January 2004) . . . . . ??
J. A. N. Filipe and
M. M. Maule Effects of dispersal mechanisms on
spatio-temporal development of epidemics 125--141
Gregory T. Reeves and
Atul Narang and
Sergei S. Pilyugin Growth of mixed cultures on mixtures of
substitutable substrates: the operating
diagram for a structured model . . . . . 143--157
Priyanga Amarasekare The role of density-dependent dispersal
in source-sink dynamics . . . . . . . . 159--168
Igor A. Sidorov and
Dennis Gee and
Dimiter S. Dimitrov A kinetic model of telomere shortening
in infants and adults . . . . . . . . . 169--175
Narayan Behera and
Vidyanand Nanjundiah Phenotypic plasticity can potentiate
rapid evolutionary change . . . . . . . 177--184
Hiroshi Hakoyama and
Yoh Iwasa Coexistence of a sexual and an unisexual
form stabilized by parasites . . . . . . 185--194
Boris P. Belotserkovskii and
David A. Zarling Analysis of a one-dimensional random
walk with irreversible losses at each
step: applications for protein movement
on DNA . . . . . . . . . . . . . . . . . 195--203
Yoh Iwasa and
Franziska Michor and
Martin A. Nowak Evolutionary dynamics of invasion and
escape . . . . . . . . . . . . . . . . . 205--214
Tamiki Umeda and
Kei Inouye Cell sorting by differential cell
motility: a model for pattern formation
in \bionameDictyostelium . . . . . . . . 215--224
Akiko Satake and
Yoh Iwasa and
Hiroshi Hakoyama and
Stephen P. Hubbell Estimating local interaction from
spatiotemporal forest data, and Monte
Carlo bias correction . . . . . . . . . 225--235
Huilian Ma and
Richard B. Dickinson Kinetic analysis of the attachment of a
biological particle to a surface by
macromolecular binding . . . . . . . . . 237--250
Anonymous Announcement: Matabolic Engineering V:
Genome to product . . . . . . . . . . . 251--251
Anonymous IFC --- Editorial Board . . . . . . . . ifc--ifc
Anonymous Pages 125--252 (21 January 2004) . . . . ??
Satoki Sakai and
Yasushi Harada Size-number trade-off and optimal
offspring size for offspring produced
sequentially using a fixed amount of
reserves . . . . . . . . . . . . . . . . 253--264
Fernando Alvarez-Vasquez and
Kellie J. Sims and
Yusuf A. Hannun and
Eberhard O. Voit Integration of kinetic information on
yeast sphingolipid metabolism in
dynamical pathway models . . . . . . . . 265--291
Kinya Nishimura and
Yutaka Isoda Evolution of cannibalism: referring to
costs of cannibalism . . . . . . . . . . 293--302
A. R. Tzafriri and
E. R. Edelman The total quasi-steady-state
approximation is valid for reversible
enzyme kinetics . . . . . . . . . . . . 303--313
Leonardo P. Maia and
Alexandre Colato and
José F. Fontanari Effect of selection on the topology of
genealogical trees . . . . . . . . . . . 315--320
D. P. Wilson and
D. L. S. McElwain A model of neutralization of Chlamydia
trachomatis based on antibody and host
cell aggregation on the elementary body
surface . . . . . . . . . . . . . . . . 321--330
Melissa D. Ho and
Bryan C. McCannon and
Jonathan P. Lynch Optimization modeling of plant root
architecture for water and phosphorus
acquisition . . . . . . . . . . . . . . 331--340
Zu-Guo Yu and
Vo Anh and
Ka-Sing Lau Chaos game representation of protein
sequences based on the detailed HP model
and their multifractal and correlation
analyses . . . . . . . . . . . . . . . . 341--348
Ford Ballantyne IV The relative importance of herbivory and
carnivory on the distribution of energy
in a stochastic tri-trophic food web . . 349--357
M. R. Bennett and
L. Farnell and
W. G. Gibson and
D. Blair A quantitative description of the
diffusion of noradrenaline in the media
of blood vessels following its release
from sympathetic varicosities . . . . . 359--372
Anonymous IFC --- Editorial Board . . . . . . . . ifc--ifc
Anonymous Pages 253--372 (7 February 2004) . . . . ??
Anonymous Author index for volume 226 . . . . . . I--II
Anonymous Subject index for volume 226 . . . . . . III--VII
Yu-Dong Cai and
Pong-Wong Ricardo and
Chih-Hung Jen and
Kuo-Chen Chou Application of SVM to predict membrane
protein types . . . . . . . . . . . . . 373--376
Markus R. Owen and
Helen M. Byrne and
Claire E. Lewis Mathematical modelling of the use of
macrophages as vehicles for drug
delivery to hypoxic tumour sites . . . . 377--391
David A. McClellan and
David G. Whiting and
Ryan Christensen and
Joshua Sailsbery Genetic codes as evolutionary filters:
subtle differences in the structure of
genetic codes result in significant
differences in patterns of nucleotide
substitution . . . . . . . . . . . . . . 393--400
Erik M. Rauch and
Mark M. Millonas The role of trans-membrane signal
transduction in turing-type cellular
pattern formation . . . . . . . . . . . 401--407
Nitesh Nalwaya and
William M. Deen Analysis of the effects of nitric oxide
and oxygen on nitric oxide production by
macrophages . . . . . . . . . . . . . . 409--419
Norio Yamamura and
Masahiko Higashi and
Narayan Behera and
Joe Yuichiro Wakano Evolution of mutualism through spatial
effects . . . . . . . . . . . . . . . . 421--428
András Barta and
Gábor Horváth Why is it advantageous for animals to
detect celestial polarization in the
ultraviolet? Skylight polarization under
clouds and canopies is strongest in the
UV . . . . . . . . . . . . . . . . . . . 429--437
Hisao Honda and
Masaharu Tanemura and
Tatsuzo Nagai A three-dimensional vertex dynamics cell
model of space-filling polyhedra
simulating cell behavior in a cell
aggregate . . . . . . . . . . . . . . . 439--453
A. Sarkar and
B. R. Franza A logical analysis of the process of T
cell activation: different consequences
depending on the state of CD28
engagement . . . . . . . . . . . . . . . 455--466
Manfred Hühn and
Hans-Peter Piepho Inbreeding coefficients for
stochastically varying small population
sizes-bias of calculation based on
effective numbers . . . . . . . . . . . 467--475
R. Twarock A tiling approach to virus capsid
assembly explaining a structural puzzle
in virology . . . . . . . . . . . . . . 477--482
Jacques Thierie Modeling threshold phenomena, metabolic
pathways switches and signals in
chemostat-cultivated cells: the Crabtree
effect in Saccharomyces cerevisiae . . . 483--501
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Anonymous Pages EX1--EX2, 373--502 (21 February
2004) . . . . . . . . . . . . . . . . . ??
Richard J. Weld and
Christine Butts and
Jack A. Heinemann Models of phage growth and their
applicability to phage therapy . . . . . 1--11
Dylan Z. Childs and
Michael B. Bonsall and
Mark Rees Periodic local disturbance in
host-parasitoid metapopulations: host
suppression and parasitoid persistence 13--23
Tim Guilford and
Stephen Roberts and
Dora Biro and
Iead Rezek Positional entropy during pigeon homing
II: navigational interpretation of
Bayesian latent state models . . . . . . 25--38
Stephen Roberts and
Tim Guilford and
Iead Rezek and
Dora Biro Positional entropy during pigeon homing
I: application of Bayesian latent state
modelling . . . . . . . . . . . . . . . 39--50
Alan H. Bond An information-processing analysis of
the functional architecture of the
primate neocortex . . . . . . . . . . . 51--79
Alan H. Bond A computational model for the primate
neocortex based on its functional
architecture . . . . . . . . . . . . . . 81--102
Patrick Namy and
Jacques Ohayon and
Philippe Tracqui Critical conditions for pattern
formation and in vitro tubulogenesis
driven by cellular traction fields . . . 103--120
G. J. Ackland Maximization principles and daisyworld 121--128
S. G. Fungairiño and
F. López and
J. M. Serrano and
F. J. Acosta and
P. de las Heras Structural cost of shoot modules and its
implications on plant potential fitness
in a Mediterranean perennial shrub,
Retama sphaerocarpa (L.) Boiss . . . . . 129--136
C. Fleurant and
J. Duchesne and
P. Raimbault An allometric model for trees . . . . . 137--147
R. Serra and
M. Villani and
A. Semeria Genetic network models and statistical
properties of gene expression data in
knock-out experiments . . . . . . . . . 149--157
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Anonymous Pages EX1--EX2, 1--158 (7 March 2004) ??
M. A. Hurley and
P. Matthiessen and
A. D. Pickering A model for environmental sex reversal
in fish . . . . . . . . . . . . . . . . 159--165
Vlastimil Krivan and
Ivo Vrkoc Should ``handled'' prey be considered?
Some consequences for functional
response, predator-prey dynamics and
optimal foraging theory . . . . . . . . 167--174
David D'Haese and
Karine Vandermeiren and
Roland Julien Caubergs and
Yves Guisez and
Ludwig De Temmerman and
Nele Horemans Non-photochemical quenching kinetics
during the dark to light transition in
relation to the formation of
antheraxanthin and zeaxanthin . . . . . 175--186
Peter L. Davidson and
Peter D. Milburn and
Barry D. Wilson Biological adaptive control model: a
mechanical analogue of multi-factorial
bone density adaptation . . . . . . . . 187--195
Christian Damgaard Dynamics in a discrete two-species
competition model: coexistence and
over-compensation . . . . . . . . . . . 197--203
Jean-Olivier Irisson and
Anselme LeVan and
Michel De Lara and
Serge Planes Strategies and trajectories of coral
reef fish larvae optimizing
self-recruitment . . . . . . . . . . . . 205--218
Lawrence M. Agius A primary dysregulation in the
immunoregulatory role of the intestinal
mucosal epithelial cell in inflammatory
bowel disease pathogenesis?: Biology of
inflammatory response as tissue pattern
entities in Crohn's versus ulcerative
colitis . . . . . . . . . . . . . . . . 219--228
Tianhai Tian and
Kevin Burrage Bistability and switching in the
lysis/lysogeny genetic regulatory
network of bacteriophage $ \lambda $ . . 229--237
Manoj Gopalakrishnan and
Kimberly Forsten-Williams and
Uwe C. Täuber Ligand-induced coupling versus receptor
pre-association: cellular automaton
simulations of FGF-2 binding . . . . . . 239--251
Tatiana V. Karpinets and
Brent D. Foy Model of the developing tumorigenic
phenotype in mammalian cells and the
roles of sustained stress and
replicative senescence . . . . . . . . . 253--264
Toshihiko Sato Size-dependent sex allocation in
hermaphroditic plants: the effects of
resource pool and self-incompatibility 265--275
Ian D. Rozdilsky and
Lewi Stone and
Andrew Solow The effects of interaction compartments
on stability for competitive systems . . 277--282
Jason A. Papin and
Bernhard O. Palsson Topological analysis of mass-balanced
signaling networks: a framework to
obtain network properties including
crosstalk . . . . . . . . . . . . . . . 283--297
Anonymous IFC --- Editorial Board . . . . . . . . ifc--ifc
Anonymous Pages 159--298 (21 March 2004) . . . . . ??
Hisashi Ohtsuki Reactive strategies in indirect
reciprocity . . . . . . . . . . . . . . 299--314
Warren F. Lamboy and
Gabriel Moreno-Hagelsieb A new method of solution for the
occupancy problem and its application to
operon size prediction . . . . . . . . . 315--322
Michael R. King Apparent $2$-D diffusivity in a ruffled
cell membrane . . . . . . . . . . . . . 323--326
K. Arii and
L. Parrott Emergence of non-random structure in
local food webs generated from randomly
structured regional webs . . . . . . . . 327--333
Harold P. de Vladar and
Jorge A. González Dynamic response of cancer under the
influence of immunological activity and
therapy . . . . . . . . . . . . . . . . 335--348
Thilo Gross and
Wolfgang Ebenhöh and
Ulrike Feudel Enrichment and foodchain stability: the
impact of different forms of
predator-prey interaction . . . . . . . 349--358
Jonathan B. Shurin and
Priyanga Amarasekare and
Jonathan M. Chase and
Robert D. Holt and
Martha F. Hoopes and
Mathew A. Leibold Alternative stable states and regional
community structure . . . . . . . . . . 359--368
Wendi Wang and
Shigui Ruan Simulating the SARS outbreak in Beijing
with limited data . . . . . . . . . . . 369--379
Jean Lehmann and
Bruno Riedo and
Giovanni Dietler Folding of small RNAs displaying the GNC
base-pattern: implications for the
self-organization of the genetic system 381--395
Daniel B. Neill Evolutionary stability for large
populations . . . . . . . . . . . . . . 397--401
Dominik Wodarz and
Akira Sasaki Apparent competition and recovery from
infection . . . . . . . . . . . . . . . 403--412
Madalena Chaves and
Eduardo D. Sontag and
Robert J. Dinerstein Steady-states of receptor-ligand
dynamics: a theoretical framework . . . 413--428
A. Krishnamachari and
Vijnan moy Mandal and
Karmeshu Study of DNA binding sites using the
Rényi parametric entropy measure . . . . 429--436
T. I. Zohdi and
G. A. Holzapfel and
S. A. Berger A phenomenological model for
atherosclerotic plaque growth and
rupture . . . . . . . . . . . . . . . . 437--443
R. M. Ranganath and
R. Nijagunaiah and
G. Shubhakara Meiosis-II and mitosis have different
molecular formats . . . . . . . . . . . 445--447
Anonymous Announcement . . . . . . . . . . . . . . 449--449
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 299--450 (7 April 2004) . . . . . ??
Wim Hordijk and
Mike Steel Detecting autocatalytic, self-sustaining
sets in chemical reaction systems . . . 451--461
Simeone Marino and
Denise E. Kirschner The human immune response to
Mycobacterium tuberculosis in lung and
lymph node . . . . . . . . . . . . . . . 463--486
Eva Skubic and
Michael Taborsky and
John M. McNamara and
Alasdair I. Houston When to parasitize? A dynamic
optimization model of reproductive
strategies in a cooperative breeder . . 487--501
Matthew Spencer and
Elizabeth A. Davidson and
Adrian C. Barbrook and
Christopher J. Howe Phylogenetics of artificial manuscripts 503--511
Helen Moore and
Natasha K. Li A mathematical model for chronic
myelogenous leukemia (CML) and T cell
interaction . . . . . . . . . . . . . . 513--523
Van M. Savage Improved approximations to scaling
relationships for species, populations,
and ecosystems across latitudinal and
elevational gradients . . . . . . . . . 525--534
Gábor Domokos and
István Scheuring Discrete and continuous state population
models in a noisy world . . . . . . . . 535--545
N. B. Grover and
E. Eidelstein and
L. J. H. Koppes Bacterial shape maintenance: an
evaluation of various models . . . . . . 547--559
Olof Leimar and
Tom J. M. Van Dooren and
Peter Hammerstein Adaptation and constraint in the
evolution of environmental sex
determination . . . . . . . . . . . . . 561--570
Roberto Refinetti Non-stationary time series and the
robustness of circadian rhythms . . . . 571--581
Uri Nevo and
Ido Golding and
Avidan U. Neumann and
Micha\l Schwartz and
Solange Akselrod Autoimmunity as an immune defense
against degenerative processes: a
primary mathematical model illustrating
the bright side of autoimmunity . . . . 583--592
Jeffrey P. Lorberbaum and
W. Reynolds Williams Erratum to ``Are there really no
evolutionarily stable strategies in the
iterated prisoner's dilemma?'': [J.
Theor. Biol. \bf 214, 155--169] . . . . 593--593
Anonymous Author Index to volume 227 . . . . . . . 595--596
Anonymous Subject Index to volume 227 . . . . . . 597--602
Anonymous IFC --- Editorial Board . . . . . . . . ifc--ifc
Anonymous Pages 451--602 (21 April 2004) . . . . . ??
William. H. James Hypotheses on how selection for some
traits in rodents led to correlated
responses in offspring sex ratios . . . 1--6
Hai-Chao Han An echocardiogram-based $ 16$-segment
model for predicting left ventricular
ejection fraction improvement . . . . . 7--15
Emi Shudo and
Yoh Iwasa Dynamic optimization of host defense,
immune memory, and post-infection
pathogen levels in mammals . . . . . . . 17--29
John Aach and
George M. Church Mathematical models of
diffusion-constrained polymerase chain
reactions: basis of high-throughput
nucleic acid assays and simple
self-organizing systems . . . . . . . . 31--46
Ricard V. Solé and
Thomas S. Deisboeck An error catastrophe in cancer? . . . . 47--54
Ian M. Joseph and
Denise Kirschner A model for the study of Helicobacter
pylori interaction with human gastric
acid secretion . . . . . . . . . . . . . 55--80
Martin J. Allan and
Robin Callard and
Jaroslav Stark and
Andrew Yates Comparing antigen-independent mechanisms
of T cell regulation . . . . . . . . . . 81--95
Carolin Kosiol and
Nick Goldman and
Nigel H. Buttimore A new criterion and method for amino
acid classification . . . . . . . . . . 97--106
R. James and
P. G. Bennett and
J. Krause Geometry for mutualistic and selfish
herds: the limited domain of danger . . 107--113
Peter Giesl and
Dorothea Meisel and
Jürgen Scheurle and
Heiko Wagner Stability analysis of the elbow with a
load . . . . . . . . . . . . . . . . . . 115--125
Kenny Smith The evolution of vocabulary . . . . . . 127--142
Samuel Bernard and
Jacques Bélair and
Micahel C. Mackey Erratum to ``Oscillations in cyclical
neutropenia: new evidence based on
mathematical modeling'': [J. Theor.
Biol. \bf 223, 283--298] . . . . . . . . 143--143
Tamiki Umeda and
Kei Inouye Erratum to ``Cell sorting by
differential motility: a model for
pattern formation in
\bionameDictyostelium'': [J.Theor. Biol.
\bf 226 (2004) 215--224] . . . . . . . . 145--146
Hisao Honda and
Masaharu Tanemura and
Tatsuzo Nagai Erratum to ``A three-dimensional vertex
dynamics cell model of space-filling
polyhedra simulating cell behavior in a
cell aggregate'': [J. Theor. Biol. \bf
226 (2004) 439--453] . . . . . . . . . . 147--147
Anonymous IFC --- Editorial Board . . . . . . . . ifc--ifc
Anonymous Pages 1--148 (7 May 2004) . . . . . . . ??
Pekka Kaitaniemi Testing the allometric scaling laws . . 149--153
T. Roose and
A. C. Fowler A model for water uptake by plant roots 155--171
T. Roose and
A. C. Fowler A mathematical model for water and
nutrient uptake by plant root systems 173--184
Yinglei Lai and
Fengzhu Sun Sampling distribution for
microsatellites amplified by PCR: mean
field approximation and its applications
to genotyping . . . . . . . . . . . . . 185--194
Tomasz Lipniacki and
Pawe\l Paszek and
Allan R. Brasier and
Bruce Luxon and
Marek Kimmel Mathematical model of NF-$ \kappa $B
regulatory module . . . . . . . . . . . 195--215
Thomas N. Sherratt and
Michael P. Speed and
Graeme D. Ruxton Natural selection on unpalatable species
imposed by state-dependent foraging
behaviour . . . . . . . . . . . . . . . 217--226
Dennis L. Chao and
Miles P. Davenport and
Stephanie Forrest and
Alan S. Perelson A stochastic model of cytotoxic T cell
responses . . . . . . . . . . . . . . . 227--240
Thomas Flatt and
István Scheuring Stabilizing factors interact in
promoting host-parasite coexistence . . 241--249
Lorens A. Imhof and
Dale Song and
Weng Kee Wong Optimal design of experiments with
anticipated pattern of missing
observations . . . . . . . . . . . . . . 251--260
Stefan A. H. Geritz and
Éva Kisdi On the mechanistic underpinning of
discrete-time population models with
complex dynamics . . . . . . . . . . . . 261--269
M. D. Hanigan and
L. A. Crompton and
C. K. Reynolds and
D. Wray-Cahen and
M. A. Lomax and
J. France An integrative model of amino acid
metabolism in the liver of the lactating
dairy cow . . . . . . . . . . . . . . . 271--289
Kinya Nishimura and
Yutaka Isoda Erratum to ``Evolution of cannibalism:
referring to costs of cannibalism'': [J.
Theor. Biol. \bf 226, 291--302] . . . . 291--291
Anonymous IFC --- Editorial Board . . . . . . . . ifc--ifc
Anonymous Pages 149--292 (21 May 2004) . . . . . . ??
Ralf Steuer Effects of stochasticity in models of
the cell cycle: from quantized cycle
times to noise-induced oscillations . . 293--301
Jeffrey A. Fletcher and
Martin Zwick Strong altruism can evolve in randomly
formed groups . . . . . . . . . . . . . 303--313
Yoshihiro Morishita and
Kazuyuki Aihara Noise-reduction through interaction in
gene expression and biochemical reaction
processes . . . . . . . . . . . . . . . 315--325
Daniel A. Beard and
Eric Babson and
Edward Curtis and
Hong Qian Thermodynamic constraints for
biochemical networks . . . . . . . . . . 327--333
R. P. Araujo and
D. L. S. McElwain New insights into vascular collapse and
growth dynamics in solid tumors . . . . 335--346
Hiro-Sato Niwa Space-irrelevant scaling law for fish
school sizes . . . . . . . . . . . . . . 347--357
Ursula Mittwoch The elusive action of sex-determining
genes: mitochondria to the rescue? . . . 359--365
Alan Roberts and
Lewi Stone Advantageous indirect interactions in
systems of competition . . . . . . . . . 367--375
Osnat Yaniv and
Uzi Motro The parental investment conflict in
continuous time: St. Peter's fish as an
example . . . . . . . . . . . . . . . . 377--388
Liron Klipcan and
Mark Safro Amino acid biogenesis, evolution of the
genetic code and aminoacyl-tRNA
synthetases . . . . . . . . . . . . . . 389--396
Hugo A. van den Berg and
David A. Rand Dynamics of T cell activation threshold
tuning . . . . . . . . . . . . . . . . . 397--416
Alexander E. Vinogradov and
Olga V. Anatskaya Phenological resonance and quantum life
history . . . . . . . . . . . . . . . . 417--420
Jean Maquet and
Christophe Letellier and
Luis A. Aguirre Scalar modeling and analysis of a 3D
biochemical reaction model . . . . . . . 421--430
Graeme D. Ruxton and
David C. Houston Obligate vertebrate scavengers must be
large soaring fliers . . . . . . . . . . 431--436
Anonymous IFC --- Editorial Board . . . . . . . . ifc--ifc
Anonymous Pages 293--436 (7 June 2004) . . . . . . ??
Sharon J. Wiback and
Iman Famili and
Harvey J. Greenberg and
Bernhard Ò. Palsson Monte Carlo sampling can be used to
determine the size and shape of the
steady-state flux space . . . . . . . . 437--447
Ali Navid and
Peter J. Ortoleva Simulated complex dynamics of glycolysis
in the protozoan parasite Trypanosoma
brucei . . . . . . . . . . . . . . . . . 449--458
Geoffrey W. Hoffmann Proteomic analyser with applications to
diagnostics and vaccines . . . . . . . . 459--465
Josh E. Baker Free energy transduction in a chemical
motor model . . . . . . . . . . . . . . 467--476
Richard Desper and
Javed Khan and
Alejandro A. Schäffer Tumor classification using phylogenetic
methods on expression data . . . . . . . 477--496
Kjell Hausken and
Jack Hirshleifer The truthful signalling hypothesis: an
explicit general equilibrium model . . . 497--511
Keola Wierschem and
Richard Bertram Complex bursting in pancreatic islets: a
potential glycolytic mechanism . . . . . 513--521
Sandrine Pavoine and
Anne-Béatrice Dufour and
Daniel Chessel From dissimilarities among species to
dissimilarities among communities: a
double principal coordinate analysis . . 523--537
M. Gabriela M. Gomes and
Lisa J. White and
Graham F. Medley Infection, reinfection, and vaccination
under suboptimal immune protection:
epidemiological perspectives . . . . . . 539--549
Yu-dong Cai and
Guo-Ping Zhou and
Chin-Hung Jen and
Shuo-Liang Lin and
Kuo-Chen Chou Identify catalytic triads of serine
hydrolases by support vector machines 551--557
Roeland M. H. Merks and
Alfons G. Hoekstra and
Jaap A. Kaandorp and
Peter M. A. Sloot Polyp oriented modelling of coral growth 559--576
Anonymous Author Index . . . . . . . . . . . . . . EX577--EX578
Anonymous IFC --- Editorial Board . . . . . . . . ifc--ifc
Anonymous Pages EX1--EX584, 437--576 (21 June
2004) . . . . . . . . . . . . . . . . . ??
Anonymous Subject Index . . . . . . . . . . . . . EX579--EX583
Thomas Petermann and
Paolo De Los Rios Cluster approximations for epidemic
processes: a systematic description of
correlations beyond the pair level . . . 1--11
Bengt Nölting and
Dennis Jülich and
Winfried Vonau and
Karl Andert Evolutionary Computer Programming of
Protein Folding and Structure
Predictions . . . . . . . . . . . . . . 13--18
Emmanuel Paradis Can extinction rates be estimated
without fossils? . . . . . . . . . . . . 19--30
James P. Grover Predation, competition, and nutrient
recycling: a stoichiometric approach
with multiple nutrients . . . . . . . . 31--43
Miguel Arocena and
Luis Acerenza Necessary conditions for a minimal model
of receptor to show adaptive response
over a wide range of levels of stimulus 45--57
L. Tao and
C. Nicholson Maximum geometrical hindrance to
diffusion in brain extracellular space
surrounding uniformly spaced convex
cells . . . . . . . . . . . . . . . . . 59--68
Eric N. Cytrynbaum Periodic stimulus and the single cardiac
cell-getting more out of 1D maps . . . . 69--83
J. Krishnan and
P. A. Iglesias A modeling framework describing the
enzyme regulation of membrane lipids
underlying gradient perception in
Dictyostelium cells . . . . . . . . . . 85--99
Stephen Turner and
Jonathan A. Sherratt and
David Cameron Tamoxifen treatment failure in cancer
and the nonlinear dynamics of TGF $
\beta $ . . . . . . . . . . . . . . . . 101--111
Harry A. Saroff pH effects on the binding of oxygen to
non-vertebrate monomeric hemoglobins. A
linked function model. . . . . . . . . . 113--118
G. Chowell and
N. W. Hengartner and
C. Castillo-Chavez and
P. W. Fenimore and
J. M. Hyman The basic reproductive number of Ebola
and the effects of public health
measures: the cases of Congo and Uganda 119--126
Abraham R. Tzafriri and
David Wu and
Elazer R. Edelman Analysis of compartmental models of
ligand-induced endocytosis . . . . . . . 127--138
Guanq-Qin Guo and
Guo-Chang Zheng Hypotheses for the functions of
intercellular bridges in male germ cell
development and its cellular mechanisms 139--146
Anonymous IFC --- Editorial Board . . . . . . . . ifc--ifc
Anonymous Pages EX1--EX2, 1--146 (7 July 2004) . . ??
Yi Tao Intrinsic and external noise in an
auto-regulatory genetic network . . . . 147--156
Peter J. Woolf and
Jennifer J. Linderman An algebra of dimerization and its
implications for G-protein coupled
receptor signaling . . . . . . . . . . . 157--168
David Taylor and
Antoine Tilmans Stress intensity variations in bone
microcracks during the repair process 169--177
Yoh Iwasa and
Franziska Michor and
Martin Nowak Some basic properties of immune
selection . . . . . . . . . . . . . . . 179--188
Colin S. Gillespie and
Carole J. Proctor and
Richard J. Boys and
Daryl P. Shanley and
Darren J. Wilkinson and
Thomas B. L. Kirkwood A mathematical model of ageing in yeast 189--196
B. Tom Burnley and
Jonathan P. L. Cox Dynamic polyhedral models of globular
proteins . . . . . . . . . . . . . . . . 197--208
Simon Benhamou How to reliably estimate the tortuosity
of an animal's path: straightness,
sinuosity, or fractal dimension? . . . . 209--220
Miloje M. Rakocevi\'c A harmonic structure of the genetic code 221--234
Jan H. G. Verhagen Hydrodynamics of burst swimming fish
larvae; a conceptual model approach . . 235--248
Tim Reluga A two-phase epidemic driven by diffusion 249--261
Theodoros Kokkorogiannis Somatic and intramuscular distribution
of muscle spindles and their relation to
muscular angiotypes . . . . . . . . . . 263--280
Michael A. Gilchrist and
Daniel Coombs and
Alan S. Perelson Optimizing within-host viral fitness:
infected cell lifespan and virion
production rate . . . . . . . . . . . . 281--288
Anonymous IFC --- Editorial Board . . . . . . . . ifc--ifc
Anonymous Pages EX1--EX2, 147--288 (21 July 2004) ??
Michael Retsky Letter to the editor . . . . . . . . . . 289--289
T. Roose and
A. C. Fowler Erratum to ``A model for water uptake by
plant roots'' . . . . . . . . . . . . . 291--291
Vincent Lemaire and
Frank L. Tobin and
Larry D. Greller and
Carolyn R. Cho and
Larry J. Suva Modeling the interactions between
osteoblast and osteoclast activities in
bone remodeling . . . . . . . . . . . . 293--309
Luis E. Flores and
Eduardo J. Aguilar and
Valmir C. Barbosa and
Luís Alfredo V. de Carvalho A graph model for the evolution of
specificity in humoral immunity . . . . 311--325
Th. Walther and
H. Reinsch and
A. Große and
K. Ostermann and
A. Deutsch and
Th. Bley Mathematical modeling of regulatory
mechanisms in yeast colony development 327--338
Gilles Bernot and
Jean-Paul Comet and
Adrien Richard and
Janine Guespin Application of formal methods to
biological regulatory networks:
extending Thomas' asynchronous logical
approach with temporal logic . . . . . . 339--347
T. J. Hagenaars and
C. A. Donnelly and
N. M. Ferguson Spatial heterogeneity and the
persistence of infectious diseases . . . 349--359
G. N. Amzallag Adaptive changes in bacteria: a
consequence of nonlinear transitions in
chromosome topology? . . . . . . . . . . 361--369
Joseph W. Freeman and
Frederick H. Silver Elastic energy storage in unmineralized
and mineralized extracellular matrices
(ECMs): a comparison between molecular
modeling and experimental measurements 371--381
Michael L. Simpson and
Chris D. Cox and
Gary S. Sayler Frequency domain chemical Langevin
analysis of stochasticity in gene
transcriptional regulation . . . . . . . 383--394
T. Alarcón and
H. M. Byrne and
P. K. Maini A mathematical model of the effects of
hypoxia on the cell-cycle of normal and
cancer cells . . . . . . . . . . . . . . 395--411
E. L. Bain and
A. J. Millar and
M. S. Turner The wild-type circadian period of
Neurospora is encoded in the residual
network of the null frq mutants . . . . 413--420
David J. Murrell and
Ulf Dieckmann and
Richard Law On moment closures for population
dynamics in continuous space . . . . . . 421--432
Anonymous IFC --- Editorial Board . . . . . . . . ifc--ifc
Anonymous Pages 289--432 (7 August 2004) . . . . . ??
K. Reinhold and
L. Engqvist Inaccurate mimicry and predator ecology 433--434
M. J. Plank and
B. D. Sleeman and
P. F. Jones A mathematical model of tumour
angiogenesis, regulated by vascular
endothelial growth factor and the
angiopoietins . . . . . . . . . . . . . 435--454
Kalet León and
Jose Faro and
Jorge Carneiro A general mathematical framework to
model generation structure in a
population of asynchronously dividing
cells . . . . . . . . . . . . . . . . . 455--476
Abraham Peper A theory of drug tolerance and
dependence I: a conceptual analysis . . 477--490
Abraham Peper A theory of drug tolerance and
dependence II: the mathematical model 491--500
Ryota Tomioka and
Hidenori Kimura and
Tetsuya J. Kobayashi and
Kazuyuki Aihara Multivariate analysis of noise in
genetic regulatory networks . . . . . . 501--521
Reinhard Laubenbacher and
Brandilyn Stigler A computational algebra approach to the
reverse engineering of gene regulatory
networks . . . . . . . . . . . . . . . . 523--537
Barbara Drossel and
Alan J. McKane and
Christopher Quince The impact of nonlinear functional
responses on the long-term evolution of
food web structure . . . . . . . . . . . 539--548
Lindsay Browning and
Andrew M. Colman Evolution of coordinated alternating
reciprocity in repeated dyadic games . . 549--557
David Schley and
C. Patrick Doncaster and
Tim Sluckin Population models of sperm-dependent
parthenogenesis . . . . . . . . . . . . 559--572
Anonymous Author Index . . . . . . . . . . . . . . EX573--EX574
Anonymous IFC --- Editorial Board . . . . . . . . ifc--ifc
Anonymous Pages 433--572 (21 August 2004) . . . . ??
Anonymous Subject Index . . . . . . . . . . . . . EX575--EX580
Dimitra D. Dionysiou and
Georgios S. Stamatakos and
Nikolaos K. Uzunoglu and
Konstantina S. Nikita and
Antigoni Marioli A four-dimensional simulation model of
tumour response to radiotherapy in vivo:
parametric validation considering
radiosensitivity, genetic profile and
fractionation . . . . . . . . . . . . . 1--20
A. Chavarría-Krauser and
U. Schurr A cellular growth model for root tips 21--32
Anthony F. Bogaert The prevalence of male homosexuality:
the effect of fraternal birth order and
variations in family size . . . . . . . 33--37
K. A. Lindsay and
J. R. Rosenberg and
G. Tucker A note on the discrepancy between the
predicted and observed speed of the
propagated action potential in the squid
giant axon . . . . . . . . . . . . . . . 39--48
Dino Accoto and
Piero Castrataro and
Paolo Dario Biomechanical analysis of Oligochaeta
crawling . . . . . . . . . . . . . . . . 49--55
Mayuko Nakamaru and
Simon A. Levin Spread of two linked social norms on
complex interaction networks . . . . . . 57--64
Robert Schlicht and
Yoh Iwasa Forest gap dynamics and the Ising model 65--75
Ramón Hegedüs and
Gábor Horváth How and why are uniformly
polarization-sensitive retinae subject
to polarization-related artefacts?
Correction of some errors in the theory
of polarization-induced false colours 77--87
Constantinos N. Maganaris A predictive model of moment-angle
characteristics in human skeletal
muscle: Application and validation in
muscles across the ankle joint . . . . . 89--98
Steven D. Webb and
Markus R. Owen Intra-membrane ligand diffusion and cell
shape modulate juxtacrine patterning . . 99--117
Jason M. Haugh and
Ian C. Schneider and
Jodee M. Lewis On the cross-regulation of protein
tyrosine phosphatases and receptor
tyrosine kinases in intracellular
signaling . . . . . . . . . . . . . . . 119--132
Bin Yan and
Barbara A. Methé and
Derek R. Lovley and
Julia Krushkal Computational prediction of conserved
operons and phylogenetic footprinting of
transcription regulatory elements in the
metal-reducing bacterial family
Geobacteraceae . . . . . . . . . . . . . 133--144
Anonymous IFC- Editorial board . . . . . . . . . . CO2
Anonymous Pages 1--144 (7 September 2004) . . . . ??
Rukmini Kumar and
Gilles Clermont and
Yoram Vodovotz and
Carson C. Chow The dynamics of acute inflammation . . . 145--155
Hiroyuki Yokomizo and
Patsy Haccou and
Yoh Iwasa Multiple-year optimization of
conservation effort and monitoring
effort for a fluctuating population . . 157--171
Ray Blanchard Quantitative and theoretical analyses of
the relation between older brothers and
homosexuality in men . . . . . . . . . . 173--187
Donald R. Forsdyke Chromosomal speciation: a reply . . . . 189--196
Tsvi Sachs Self-organization of tree form: a model
for complex social systems . . . . . . . 197--202
Manuel Mendoza and
Brian Goodwin and
Carlos Criado Emergence of community structure in
terrestrial mammal-dominated ecosystems 203--214
Dinakar Desai and
Kunbo Zhang and
Sailen Barik and
Alok Srivastava and
Mark E. Bolander and
Gobinda Sarkar Intragenic codon bias in a set of mouse
and human genes . . . . . . . . . . . . 215--225
Natalia L. Komarova Replicator-mutator equation,
universality property and population
dynamics of learning . . . . . . . . . . 227--239
Sander Bruun and
Johan Six and
Lars S. Jensen Estimating vital statistics and age
distributions of measurable soil organic
carbon fractions based on their pathway
of formation and radiocarbon content . . 241--250
Seymour Garte Fractal properties of the human genome 251--260
Roland Thar and
Michael Kühl Propagation of electromagnetic radiation
in mitochondria? . . . . . . . . . . . . 261--270
Emmanuel Garcion and
Bradley Wallace and
Laurent Pelletier and
Didier Wion RNA mutagenesis and sporadic prion
diseases . . . . . . . . . . . . . . . . 271--274
Kalman Schulgasser and
Allan Witztum Spiralling upward . . . . . . . . . . . 275--280
Kalman Schulgasser and
Allan Witztum The hierarchy of chirality . . . . . . . 281--288
Anonymous IFC- Editorial board . . . . . . . . . . ifc--ifc
Anonymous Pages 145--288 (21 September 2004) . . . ??
Theodore J. Perkins and
Mike Hallett and
Leon Glass Inferring models of gene expression
dynamics . . . . . . . . . . . . . . . . 289--299
David Orrell and
Hamid Bolouri Control of internal and external noise
in genetic regulatory networks . . . . . 301--312
Shigeyuki Aoki and
Utako Kurosu How many soldiers are optimal for an
aphid colony? . . . . . . . . . . . . . 313--317
Anders Eriksson and
Kristian Lindgren and
Torbjörn Lundh War of attrition with implicit time cost 319--332
Juan F. Poyatos and
Amancio Carnero Non-neutral role of replicative
senescence in tissue homeostasis and
tumorigenesis . . . . . . . . . . . . . 333--341
A. P. Martin A Malthusian curb on spatial structure
in microorganism populations . . . . . . 343--349
Stefano Allesina and
Antonio Bodini Who dominates whom in the ecosystem?
Energy flow bottlenecks and cascading
extinctions . . . . . . . . . . . . . . 351--358
Radhakrishnan Nagarajan and
Jane E. Aubin and
Charlotte A. Peterson Modeling genetic networks from clonal
analysis . . . . . . . . . . . . . . . . 359--373
Wei Li and
Shuo-Xing Dou and
Peng-Ye Wang Brownian dynamics simulation of
nucleosome formation and disruption
under stretching . . . . . . . . . . . . 375--383
Leonid B. Katsnelson and
Larissa V. Nikitina and
Denis Chemla and
Olga Solovyova and
Catherine Coirault and
Yves Lecarpentier and
Vladimir S. Markhasin Influence of viscosity on myocardium
mechanical activity: a mathematical
model . . . . . . . . . . . . . . . . . 385--405
Benjamin Kenward and
Carl-Adam Wachtmeister and
Stefano Ghirlanda and
Magnus Enquist Spots and stripes: the evolution of
repetition in visual signal form . . . . 407--419
Bruce P. Graham and
Arjen van Ooyen Transport limited effects in a model of
dendritic branching . . . . . . . . . . 421--432
Anonymous IFC- Editorial board . . . . . . . . . . ifc--ifc
Anonymous Pages 289--432 (7 October 2004) . . . . ??
John J. Tyson and
Leon Glass Arthur T. Winfree (1942--2002) . . . . . 433--439
Rachael Winfree Art Winfree, Artist of Science . . . . . 441--443
Bradley J. Roth Art Winfree and the bidomain model of
cardiac tissue . . . . . . . . . . . . . 445--449
George Oster Clocks and patterns in Myxobacteria: a
remembrance of Art Winfree . . . . . . . 451--458
James P. Keener The topology of defibrillation . . . . . 459--473
José Jalife and
Omer Berenfeld Molecular mechanisms and global dynamics
of fibrillation: an integrative approach
to the underlying basis of vortex-like
reentry . . . . . . . . . . . . . . . . 475--487
S. Takagi and
A. Pumir and
D. Pazó and
I. Efimov and
V. Nikolski and
V. Krinsky A physical approach to remove anatomical
reentries: a bidomain study . . . . . . 489--497
T. Krogh-Madsen and
L. Glass and
E. J. Doedel and
M. R. Guevara Apparent discontinuities in the
phase-resetting response of cardiac
pacemakers . . . . . . . . . . . . . . . 499--519
Daniel B. Forger and
David Paydarfar Starting, stopping, and resetting
biological oscillators: in search of
optimum perturbations . . . . . . . . . 521--532
Daniel B. Forger and
Charles S. Peskin Model based conjectures on mammalian
clock controversies . . . . . . . . . . 533--539
Jean-Christophe Leloup and
Albert Goldbeter Modeling the mammalian circadian clock:
Sensitivity analysis and multiplicity of
oscillatory mechanisms . . . . . . . . . 541--562
Béla Novák and
John J. Tyson A model for restriction point control of
the mammalian cell cycle . . . . . . . . 563--579
Stuart Kauffman A proposal for using the ensemble
approach to understand genetic
regulatory networks . . . . . . . . . . 581--590
Bertrand Clarke and
Glenn Fawcett and
Jay E. Mittenthal Netscan: a procedure for generating
reaction networks by size . . . . . . . 591--602
Anonymous Author Index . . . . . . . . . . . . . . 603--604
Anonymous Subject Index . . . . . . . . . . . . . 605--609
Anonymous (ATW) . . . . . . . . . . . . . . . . . ??
Anonymous IFC- Editorial board . . . . . . . . . . ifc--ifc
Emi Shudo and
Yoh Iwasa Erratum to ``Inducible defense against
pathogens and parasites: optimal choice
among multiple options'' [J. Theor.
Biol. (2001) \bf 209, 233--247] . . . . 1--1
Soile V. E. Keränen Simulation study on effects of signaling
network structure on the developmental
increase in complexity . . . . . . . . . 3--21
K. Sriram and
M. S. Gopinathan A two variable delay model for the
circadian rhythm of Neurospora crassa 23--38
Bent H. Havsteen Control of the pathogenic conformational
change of the prion protein by an
attractor of low order . . . . . . . . . 39--48
K. K. Subramanian and
Atul Narang A mechanistic model for eukaryotic
gradient sensing: Spontaneous and
induced phosphoinositide polarization 49--67
Ivar Òstby and
Gunnar Kvalheim and
Leiv S. Rusten and
Per Gròttum Mathematical modeling of granulocyte
reconstitution after high-dose
chemotherapy with stem cell support:
effect of post-transplant G-CSF
treatment . . . . . . . . . . . . . . . 69--83
Song Jiang-Ning and
Li Wei-Jiang and
Xu Wen-Bo Cooperativity of the oxidization of
cysteines in globular proteins . . . . . 85--95
Margarita Ifti and
Timothy Killingback and
Michael Doebeli Effects of neighbourhood size and
connectivity on the spatial Continuous
Prisoner's Dilemma . . . . . . . . . . . 97--106
Hisashi Ohtsuki and
Yoh Iwasa How should we define goodness? ---
reputation dynamics in indirect
reciprocity . . . . . . . . . . . . . . 107--120
Alexander B. Medvinsky and
Andrew Y. Morozov and
Vassili V. Velkov and
Bai-Lian Li and
Mikhail S. Sokolov and
Horst Malchow Modeling the invasion of recessive
Bt-resistant insects: An impact on
transgenic plants . . . . . . . . . . . 121--127
John M. C. Hutchinson and
Konrad Halupka Mate choice when males are in patches:
optimal strategies and good rules of
thumb . . . . . . . . . . . . . . . . . 129--151
Anonymous IFC- Editorial board . . . . . . . . . . ifc--ifc
Anonymous Pages 1--152 (7 November 2004) . . . . . ??
Brajendra K. Singh and
Joydev Chattopadhyay and
Somdatta Sinha The role of virus infection in a simple
phytoplankton zooplankton system . . . . 153--166
Zs. I. Németh and
L. Albert and
Sz. Varga Characterization of germination with
physical parameters: correlation of
relative mass and density as an
indicator function of the germination of
European Turkey oak acorn . . . . . . . 167--174
Jan Alboszta and
Jacek Mie\ckisz Stability of evolutionarily stable
strategies in discrete replicator
dynamics with time delay . . . . . . . . 175--179
Andrew Yates and
Robin Callard and
Jaroslav Stark Combining cytokine signalling with T-bet
and GATA-3 regulation in Th1 and Th2
differentiation: a model for cellular
decision-making . . . . . . . . . . . . 181--196
Paulo R. A. Campos and
Viviane M. de Oliveira and
Günter P. Wagner and
Peter F. Stadler Gene phylogenies and protein-protein
interactions: possible artifacts
resulting from shared protein
interaction partners . . . . . . . . . . 197--202
John C. Dallon and
Hans G. Othmer How cellular movement determines the
collective force generated by the
\bionameDictyostelium discoideum slug 203--222
Johan Lind What determines probability of surviving
predator attacks in bird migration?: the
relative importance of vigilance and
fuel load . . . . . . . . . . . . . . . 223--227
J. M. Ireland and
R. A. Norman and
J. V. Greenman The effect of seasonal host birth rates
on population dynamics: the importance
of resonance . . . . . . . . . . . . . . 229--238
Antonio Torres-Montaner and
David Hughes A hypothetical anti-neoplastic mechanism
associated to reserve cells . . . . . . 239--248
C. Athena Aktipis Know when to walk away: contingent
movement and the evolution of
cooperation . . . . . . . . . . . . . . 249--260
Mark Broom and
Carola Borries and
Andreas Koenig Infanticide and infant defence by
males-modelling the conditions in
primate multi-male groups . . . . . . . 261--270
Bengt O. Bengtsson Modelling the evolution of genomes with
integrated external and internal
functions . . . . . . . . . . . . . . . 271--278
Alexander John and
Andreas Schadschneider and
Debashish Chowdhury and
Katsuhiro Nishinari Collective effects in traffic on
bi-directional ant trails . . . . . . . 279--285
Moisés Santillán and
Eduardo S. Zeron Dynamic influence of feedback enzyme
inhibition and transcription attenuation
on the tryptophan operon response to
nutritional shifts . . . . . . . . . . . 287--298
Göran Bengtsson and
Elna Nilsson and
Tobias Rydén and
Magnus Wiktorsson Irregular walks and loops combines in
small-scale movement of a soil insect:
implications for dispersal biology . . . 299--306
Anonymous IFC- Editorial board . . . . . . . . . . ifc--ifc
Anonymous Pages EX1--EX2, 153--306 (21 November
2004) . . . . . . . . . . . . . . . . . ??
Jacques Ninio and
Sebastian Amigorena How B cells and dendritic cells may
cooperate in antigen purification . . . 309--317
S. Thaller and
H. Wagner The relation between Hill's equation and
individual muscle properties . . . . . . 319--332
P. C. Luttikhuizen and
P. J. C. Honkoop and
J. Drent and
J. van der Meer A general solution for optimal egg size
during external fertilization, extended
scope for intermediate optimal egg size
and the introduction of Don Ottavio
`tango' . . . . . . . . . . . . . . . . 333--343
Jan Engelstädter and
Arndt Telschow and
Peter Hammerstein Infection dynamics of different
\bionameWolbachia-types within one host
population . . . . . . . . . . . . . . . 345--355
Jose L. Segovia-Juarez and
Suman Ganguli and
Denise Kirschner Identifying control mechanisms of
granuloma formation during \bionameM.
tuberculosis infection using an
agent-based model . . . . . . . . . . . 357--376
Susana Vinga and
Jonas S. Almeida Rényi continuous entropy of DNA sequences 377--388
Karine Poitrineau and
Sam P. Brown and
Michael E. Hochberg The joint evolution of defence and
inducibility against natural enemies . . 389--396
S. C. O'Connor and
P. A. Robinson Unifying and interpreting the spectral
wavenumber content of EEGs, ECoGs, and
ERPs . . . . . . . . . . . . . . . . . . 397--412
Donald. L. Rowe and
Peter. A. Robinson and
Christopher. J. Rennie Estimation of neurophysiological
parameters from the waking EEG using a
biophysical model of brain dynamics . . 413--433
Masashi Kamo and
Michael Boots The curse of the pharaoh in space:
free-living infectious stages and the
evolution of virulence in spatially
explicit populations . . . . . . . . . . 435--441
Michael A. Henson Modeling the synchronization of yeast
respiratory oscillations . . . . . . . . 443--458
Anonymous IFC- Editorial board . . . . . . . . . . ifc--ifc
Anonymous Pages EX1--EX2, 309--458 (7 December
2004) . . . . . . . . . . . . . . . . . ??
Barry R. Pittendrigh and
Patrick J. Gaffney and
Joseph E. Huesing and
David W. Onstad and
Richard T. Roush and
Larry L. Murdock ``Active'' refuges can inhibit the
evolution of resistance in insects
towards transgenic insect-resistant
plants . . . . . . . . . . . . . . . . . 461--474
Hannelore Brandt and
Karl Sigmund The logic of reprobation: assessment and
action rules for indirect reciprocation 475--486
Christopher P. Fall and
John M. Wagner and
Leslie M. Loew and
Richard Nuccitelli Cortically restricted production of IP3
leads to propagation of the
fertilization Ca$^{2+}$ wave along the
cell surface in a model of the Xenopus
egg . . . . . . . . . . . . . . . . . . 487--496
Magnus Wiktorsson and
Tobias Rydén and
Elna Nilsson and
Göran Bengtsson Modelling the movement of a soil insect 497--513
Sabrina L. Spencer and
Matthew J. Berryman and
José A. García and
Derek Abbott An ordinary differential equation model
for the multistep transformation to
cancer . . . . . . . . . . . . . . . . . 515--524
Audun Bakk and
Ralf Metzler Nonspecific binding of the OR repressors
CI and Cro of bacteriophage $ \lambda $ 525--533
Hugo A. van den Berg and
David A. Rand Foreignness as a matter of degree: the
relative immunogenicity of peptide/MHC
ligands . . . . . . . . . . . . . . . . 535--548
G. A. Pearson and
Scott Dillery and
J. R. Meyer Modeling intra-sexual competition in a
sex pheromone system: how much can
female movement affect female mating
success? . . . . . . . . . . . . . . . . 549--555
Anna Fukshansky A stochastic model for the
mutation-selection balance in an
infinite asexual population with a
genome of fixed size . . . . . . . . . . 557--562
Yi Tao Intrinsic noise, gene regulation and
steady-state statistics in a two-gene
network . . . . . . . . . . . . . . . . 563--568
John Currey Incompatible mechanical properties in
compact bone . . . . . . . . . . . . . . 569--580
Jeffrey J. Morgan and
Ivan V. Surovtsev and
Paul A. Lindahl A framework for whole-cell mathematical
modeling . . . . . . . . . . . . . . . . 581--596
Andrei Khrennikov Probabilistic pathway representation of
cognitive information . . . . . . . . . 597--613
Anonymous Author Index . . . . . . . . . . . . . . 615--616
Anonymous Subject Index . . . . . . . . . . . . . 617--622
Anonymous IFC- Editorial board . . . . . . . . . . ifc--ifc
Anonymous Pages EX1--EX2, 461--622 (21 December
2004) . . . . . . . . . . . . . . . . . ??
John M. McNamara and
Alasdair I. Houston If animals know their own fighting
ability, the evolutionarily stable level
of fighting is reduced . . . . . . . . . 1--6
Meng Wang and
Jie Yang and
Zhi-Jie Xu and
Kuo-Chen Chou SLLE for predicting membrane protein
types . . . . . . . . . . . . . . . . . 7--15
Yoh Iwasa and
Franziska Michor and
Martin A. Nowak Virus evolution within patients
increases pathogenicity . . . . . . . . 17--26
D. Michael Goedecke and
Timothy C. Elston A model for the oscillatory motion of
single dynein molecules . . . . . . . . 27--39
David Israeli and
Simin Ziaei and
Patrick Gonin and
Luis Garcia A proposal for the physiological
significance of mdr1 and Bcrp1/Abcg2
gene expression in normal tissue
regeneration and after cancer therapy 41--45
Jacek Mie\ckisz Equilibrium selection in evolutionary
games with random matching of players 47--53
Madhukar S. Dasika and
Anshuman Gupta and
Costas D. Maranas DEMSIM: a discrete event based
mechanistic simulation platform for gene
expression and regulation dynamics . . . 55--69
Lauren Ancel Meyers and
Babak Pourbohloul and
M. E. J. Newman and
Danuta M. Skowronski and
Robert C. Brunham Network theory and SARS: predicting
outbreak diversity . . . . . . . . . . . 71--81
Petr Hanzálek and
Jaroslav Kypr DNA in phosphorus atom representation:
the heteronomous double helices of
poly(dA)$ \cdot $ poly(dT) and poly(dG)$
\cdot $ poly(dC) and simulation of the
yeast genome and of a human chromosome
DNA . . . . . . . . . . . . . . . . . . 83--91
Armin Meister Calculation of binding length of
base-specific DNA dyes by comparison of
sequence and flow cytometric data.
Application to \bionameOryza sativa and
\bionameArabidopsis thaliana . . . . . . 93--97
István Scheuring The iterated continuous prisoner's
dilemma game cannot explain the
evolution of interspecific mutualism in
unstructured populations . . . . . . . . 99--104
Joseph H. Tien and
Danielle Lyles and
Mary Lou Zeeman A potential role of modulating inositol
1,4,5-trisphosphate receptor
desensitization and recovery rates in
regulating ovulation . . . . . . . . . . 105--117
Héctor T. Arita Range size in mid-domain models of
species diversity . . . . . . . . . . . 119--126
Glenn Marion and
David L. Swain and
Mike R. Hutchings Understanding foraging behaviour in
spatially heterogeneous environments . . 127--142
David Hiebeler Spatially correlated disturbances in a
locally dispersing population model . . 143--149
Anonymous IFC- Editorial board . . . . . . . . . . ifc--ifc
Anonymous Pages EX1--EX2, 1--150 (7 January 2005) ??
R. A. Flickinger Transcriptional frequency and cell
determination . . . . . . . . . . . . . 151--156
Anne-Gaëlle Rolland-Lagan and
Enrico Coen and
Stephen J. Impey and
J. Andrew Bangham A computational method for inferring
growth parameters and shape changes
during development based on clonal
analysis . . . . . . . . . . . . . . . . 157--177
Laura Sontag and
David E. Axelrod Evaluation of pathways for progression
of heterogeneous breast tumors . . . . . 179--189
Yukari Suzuki and
Yukihiko Toquenaga Effects of information and group
structure on evolution of altruism:
analysis of two-score model by
covariance and contextual analyses . . . 191--201
Hiroshi Hakoyama and
Yoh Iwasa Extinction risk of a meta-population:
aggregation approach . . . . . . . . . . 203--216
R. W. Daniel and
C. A. R. Boyd Membrane transporters as machines:
degenerate singularities as a
requirement for function . . . . . . . . 217--221
Catherine Beauchemin and
John Samuel and
Jack Tuszynski A simple cellular automaton model for
influenza A viral infections . . . . . . 223--234
G. Caron-Lormier and
H. Berry Amplification and oscillations in the
FAK/Src kinase system during integrin
signaling . . . . . . . . . . . . . . . 235--248
D. Bauer and
R. Grebe and
A. Ehrlacher First phase microcirculatory reaction to
mechanical skin irritation: a three
layer model of a compliant vascular tree 249--260
Osnat Yaniv and
Uzi Motro Time-dependent animal conflicts: 1. The
symmetric case . . . . . . . . . . . . . 261--275
Osnat Yaniv and
Uzi Motro Time-dependent animal conflicts: 2. The
asymmetric case . . . . . . . . . . . . 277--284
Zoltán Kutalik and
Moe Razaz and
József Baranyi Connection between stochastic and
deterministic modelling of microbial
growth . . . . . . . . . . . . . . . . . 285--299
Anonymous IFC- Editorial board . . . . . . . . . . ifc--ifc
Anonymous Pages EX1--EX2, 151--300 (21 January
2005) . . . . . . . . . . . . . . . . . ??
Anonymous Erratum to: ``Proteomic analyser with
applications to diagnostics and
vaccines'' [Journal of Theoretical
Biology \bf 228 (2003) 459--465] . . . . 301--301
John M. C. Hutchinson and
Konard Halupka Erratum to ``Mate choice when males are
in patches: optimal strategies and good
rules of thumb'' [Journal of Theoretical
Biology \bf 231 (2004) 129--151] . . . . 303--303
Rogier P. O. Schulte and
Egbert A. Lantinga and
Michael J. Hawkins A new family of Fisher-curves estimates
Fisher's alpha more accurately . . . . . 305--313
Hartmut Geyer and
Andre Seyfarth and
Reinhard Blickhan Spring-mass running: simple approximate
solution and application to gait
stability . . . . . . . . . . . . . . . 315--328
M. P. Little and
J. A. N. Filipe and
K. M. Prise and
M. Folkard and
O. V. Belyakov A model for radiation-induced bystander
effects, with allowance for spatial
position and the effects of cell
turnover . . . . . . . . . . . . . . . . 329--338
Nicole A. R. Walter and
Justin Stebbing and
Walter Messier The potential significance of adaptive
evolution and dimerization in chimpanzee
intercellular cell adhesion molecules
(ICAMs) . . . . . . . . . . . . . . . . 339--346
D. Bauer and
R. Grebe and
A. Ehrlacher A three-layer continuous model of porous
media to describe the first phase of
skin irritation . . . . . . . . . . . . 347--362
Mario Recker and
Sunetra Gupta A model for pathogen population
structure with cross-protection
depending on the extent of overlap in
antigenic variant repertoires . . . . . 363--373
Elisabeth Pécou Splitting the dynamics of large
biochemical interaction networks . . . . 375--384
Karin A. Reijenga and
Yvonne M. G. A. van Megen and
Bob W. Kooi and
Barbara M. Bakker and
Jacky L. Snoep and
Henk W. van Verseveld and
Hans V. Westerhoff Yeast glycolytic oscillations that are
not controlled by a single oscillophore:
a new definition of oscillophore
strength . . . . . . . . . . . . . . . . 385--398
Anders Eriksson and
Kristian Lindgren Cooperation driven by mutations in
multi-person Prisoner's Dilemma . . . . 399--409
F. Ellis McKenzie and
William H. Bossert An integrated model of
\bionamePlasmodium falciparum dynamics 411--426
Michael Andrec and
Boris N. Kholodenko and
Ronald M. Levy and
Eduardo Sontag Inference of signaling and gene
regulatory networks by steady-state
perturbation experiments: structure and
accuracy . . . . . . . . . . . . . . . . 427--441
Carlos Cordero The evolutionary origin of signa in
female Lepidoptera: natural and sexual
selection hypotheses . . . . . . . . . . 443--449
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Hisashi Ohtsuki and
Yoh Iwasa Erratum to: ``How should we define
goodness? --- reputation dynamics in
indirect reciprocity'' [Journal of
Theoretical Biology \bf 231 (2004)
107--120] . . . . . . . . . . . . . . . 451--451
Maria E. Orive and
Miles N. Stearns and
John K. Kelly and
Michael Barfield and
Marilyn S. Smith and
Robert D. Holt Viral infection in internally structured
hosts. I. Conditions for persistent
infection . . . . . . . . . . . . . . . 453--466
Shakti Gupta and
S. S. Pilyugin and
Atul Narang The dynamics of single-substrate
continuous cultures: The role of
ribosomes . . . . . . . . . . . . . . . 467--490
Alison B. Peet and
Peter A. Deutsch and
Enrique Peacock-López Complex dynamics in a three-level
trophic system with intraspecies
interaction . . . . . . . . . . . . . . 491--503
Benjamin Lindner and
André Longtin Effect of an exponentially decaying
threshold on the firing statistics of a
stochastic integrate-and-fire neuron . . 505--521
S. J. Franks and
H. M. Byrne and
J. C. E. Underwood and
C. E. Lewis Biological inferences from a
mathematical model of comedo ductal
carcinoma in situ of the breast . . . . 523--543
Armin Rashidi and
Iman Khodarahmi Nonlinear modeling of the
atrioventricular node physiology in
atrial fibrillation . . . . . . . . . . 545--549
Paul E. Anderson and
Henrik Jeldtoft Jensen Network properties, species abundance
and evolution in a model of evolutionary
ecology . . . . . . . . . . . . . . . . 551--558
Li-Qian Zhou and
Zu-Guo Yu and
Ji-Qing Deng and
Vo Anh and
Shun-Chao Long A fractal method to distinguish coding
and non-coding sequences in a complete
genome based on a number sequence
representation . . . . . . . . . . . . . 559--567
G. Civelekoglu-Scholey and
A. Wayne Orr and
I. Novak and
J.-J. Meister and
M. A. Schwartz and
A. Mogilner Model of coupled transient changes of
Rac, Rho, adhesions and stress fibers
alignment in endothelial cells
responding to shear stress . . . . . . . 569--585
P. S. Dodds and
D. J. Watts A generalized model of social and
biological contagion . . . . . . . . . . 587--604
Anonymous Author Index . . . . . . . . . . . . . . 605--606
Anonymous Subject Index . . . . . . . . . . . . . 607--612
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Seymour S. Alpert A limit on the energy transfer rate from
the human fat store in hypophagia . . . 1--13
Yoh Iwasa and
Franziska Michor and
Natalia L. Komarova and
Martin A. Nowak Population genetics of tumor suppressor
genes . . . . . . . . . . . . . . . . . 15--23
PhilipH. Crowley and
Christopher R. Stieha and
D. Nicholas McLetchie Overgrowth competition, fragmentation
and sex-ratio dynamics: a spatially
explicit, sub-individual-based model . . 25--42
Aydin Tözeren and
Charles W. Coward and
Sokol P. Petushi Origins and evolution of cell phenotypes
in breast tumors . . . . . . . . . . . . 43--54
Kara J. O'Keefe The evolution of virulence in pathogens
with frequency-dependent transmission 55--64
Satoki Sakai and
Yasushi Harada Production of offspring using current
income and reserves: size-number
trade-off and optimal offspring size . . 65--73
V. Calvez and
A. Korobeinikov and
P. K. Maini Cluster formation for multi-strain
infections with cross-immunity . . . . . 75--83
R. Hewer and
D. Meyer Peptide immunogens designed to enhance
immune responses against human
immunodeficiency virus (HIV) mutant
strains: a plausible means of preventing
viral persistence . . . . . . . . . . . 85--90
Travis C. Porco and
James O. Lloyd-Smith and
Kimber L. Gross and
Alison P. Galvani The effect of treatment on pathogen
virulence . . . . . . . . . . . . . . . 91--102
Amir Muzur Toward an integrative theory of sleep
and dreaming . . . . . . . . . . . . . . 103--118
Hans K. Stenòien and
Bård Pedersen Mutation and epimutation load in haploid
and diploid life forms . . . . . . . . . 119--126
Pierre Wong A hypothesis of the disc-sphere
transformation of the erythrocytes
between glass surfaces and of related
observations . . . . . . . . . . . . . . 127--135
Gyorgy Korniss and
Thomas Caraco Spatial dynamics of invasion: the
geometry of introduced species . . . . . 137--150
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C. Cudennec On the transposition and the improvement
of an allometric model from river
networks to trees: identification of
analogous objects, variables and
modellings . . . . . . . . . . . . . . . 151--157
Yanni Xiao and
Roger G. Bowers and
Damian Clancy and
Nigel P. French Understanding the dynamics of Salmonella
infections in dairy herds: a modelling
approach . . . . . . . . . . . . . . . . 159--175
Cailin Xu and
Mark S. Boyce and
Madhav Gadgil and
Vidyanand Nanjundiah Forecasting spatially structured
populations: the role of dispersal and
scale . . . . . . . . . . . . . . . . . 177--189
Juan M. García-Manso and
Juan M. Martín-González and
Nancy Dávila and
Enrique Arriaza Middle and long distance athletics races
viewed from the perspective of
complexity . . . . . . . . . . . . . . . 191--198
Iztok Lebar Bajec and
Nikolaj Zimic and
Miha Mraz Simulating flocks on the wing: the fuzzy
approach . . . . . . . . . . . . . . . . 199--220
Georg A. Funk and
Vincent A. A. Jansen and
Sebastian Bonhoeffer and
Timothy Killingback Spatial models of virus-immune dynamics 221--236
Mahmut Ozer and
Ivo Provaznik A comparative tool for the validity of
rate kinetics in ion channels by Onsager
reciprocity theorem . . . . . . . . . . 237--243
G. D. Zacarias and
C. P. Ferreira and
J. X. Velasco-Hernández Porosity and tortuosity relations as
revealed by a mathematical model of
biofilm structure . . . . . . . . . . . 245--251
L. Bodenstein and
C. D. Stern Formation of the chick primitive streak
as studied in computer simulations . . . 253--269
S. C. O'Connor and
P. A. Robinson Analysis of the electroencephalographic
activity associated with thalamic tumors 271--286
Dusan Lazár and
Petr Ilík and
Jerzy Kruk and
Kazimierz Strzalka and
Jan Naus A theoretical study on effect of the
initial redox state of cytochrome b 559
on maximal chlorophyll fluorescence
level $ (F M) $: implications for
photoinhibition of photosystem II . . . 287--300
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M. Bahman Bahramian and
Helmut Zarbl GENE impedance: a natural process for
control of gene expression and the
origin of RNA interference . . . . . . . 301--314
Ricky O'Brien and
Nev Fowkes Modification patterns in germinating
barley-malting II . . . . . . . . . . . 315--325
Elchanan Mossel and
Mike Steel Random biochemical networks: the
probability of self-sustaining
autocatalysis . . . . . . . . . . . . . 327--336
Michael E. Green A possible role for phosphate in
complexing the arginines of S4 in
voltage gated channels . . . . . . . . . 337--341
A. Rami Tzafriri and
Elazer R. Edelman On the validity of the quasi-steady
state approximation of bimolecular
reactions in solution . . . . . . . . . 343--350
David A. Ratkowsky and
June Olley and
Tom Ross Unifying temperature effects on the
growth rate of bacteria and the
stability of globular proteins . . . . . 351--362
Roger G. Bowers and
Andrew Hoyle and
Andrew White and
Michael Boots The geometric theory of adaptive
evolution: trade-off and invasion plots 363--377
Almut Scherer and
Sebastian Bonhoeffer Epitope down-modulation as a mechanism
for the coexistence of competing T-cells 379--390
Olivier Cinquin and
Jacques Demongeot High-dimensional switches and the
modelling of cellular differentiation 391--411
Jun Nakabayashi and
Akira Sasaki Optimal phosphorylation step number of
intracellular signal-transduction
pathway . . . . . . . . . . . . . . . . 413--421
Pawe\l Paszek and
Tomasz Lipniacki and
Allan R. Brasier and
Bing Tian and
David E. Nowak and
Marek Kimmel Stochastic effects of multiple
regulators on expression profiles in
eukaryotes . . . . . . . . . . . . . . . 423--433
Pierre-Yves Oudeyer The self-organization of speech sounds 435--449
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Grzegorz Bartosz Food toxicity contributes to the
beneficial effects of calorie
restriction . . . . . . . . . . . . . . 451--452
Gen Kurosawa and
Yoh Iwasa Temperature compensation in circadian
clock models . . . . . . . . . . . . . . 453--468
Chaitanya Athale and
Yuri Mansury and
Thomas S. Deisboeck Simulating the impact of a molecular
`decision-process' on cellular phenotype
and multicellular patterns in brain
tumors . . . . . . . . . . . . . . . . . 469--481
Kimberly Forsten-Williams and
Ceres C. Chua and
Matthew A. Nugent The kinetics of FGF-2 binding to heparan
sulfate proteoglycans and MAP kinase
signaling . . . . . . . . . . . . . . . 483--499
Hiroshi Yoshida and
Chikara Furusawa and
Kunihiko Kaneko Selection of initial conditions for
recursive production of multicellular
organisms . . . . . . . . . . . . . . . 501--514
Geoff Clarke and
Charles J. Lumsden Scale-free neurodegeneration: cellular
heterogeneity and the stretched
exponential kinetics of cell death . . . 515--525
Apoorva Patel The triplet genetic code had a doublet
predecessor . . . . . . . . . . . . . . 527--532
Athanasius F. M. Marée and
Mitsuhiro Komba and
Cheryl Dyck and
Marek \Lab\kecki and
Diane T. Finegood and
Leah Edelstein-Keshet Quantifying macrophage defects in type 1
diabetes . . . . . . . . . . . . . . . . 533--551
J. Verdasca and
M. M. Telo da Gama and
A. Nunes and
N. R. Bernardino and
J. M. Pacheco and
M. C. Gomes Recurrent epidemics in small world
networks . . . . . . . . . . . . . . . . 553--561
Stephen L. Bearne and
Raymond J. Spiteri Reduction of intrinsic kinetic and
thermodynamic barriers for
enzyme-catalysed proton transfers from
carbon acid substrates . . . . . . . . . 563--571
E. A. Codling and
N. A. Hill Sampling rate effects on measurements of
correlated and biased random walks . . . 573--588
Satoshi Kanazawa and
Griet Vandermassen Engineers have more sons, nurses have
more daughters: an evolutionary
psychological extension of
Baron--Cohen's extreme male brain theory
of autism . . . . . . . . . . . . . . . 589--599
Anonymous Author Index . . . . . . . . . . . . . . 600--601
Anonymous Subject Index . . . . . . . . . . . . . 603--607
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Takashi Kunisawa Branching orders among $ \alpha
$-proteobacteria and mitochondria
inferred from gene transpositions . . . 1--5
S. Kjelstrup and
J. M. Rubi and
D. Bedeaux Active transport: a kinetic description
based on thermodynamic grounds . . . . . 7--12
Tinri Aegerter-Wilmsen and
Christof M. Aegerter and
Ton Bisseling Model for the robust establishment of
precise proportions in the early
Drosophila embryo . . . . . . . . . . . 13--19
M. L. Lucas Amendments to the theory underlying
Ussing chamber data of chloride ion
secretion after bacterial enterotoxin
exposure . . . . . . . . . . . . . . . . 21--37
Vincent A. A. Jansen and
Hester Korthals Altes and
Georg A. Funk and
Dominik Wodarz Contrasting B cell- and T cell-based
protective vaccines . . . . . . . . . . 39--48
Sam Van Wassenbergh and
Peter Aerts and
Dominique Adriaens and
Anthony Herrel A dynamic model of mouth closing
movements in clariid catfishes: the role
of enlarged jaw adductors . . . . . . . 49--65
Akira Azuma and
Masato Okamoto Theoretical study on two-dimensional
aerodynamic characteristics of unsteady
wings . . . . . . . . . . . . . . . . . 67--78
Fumihide Shiraishi and
Yuji Hatoh and
Toshinori Irie An efficient method for calculation of
dynamic logarithmic gains in biochemical
systems theory . . . . . . . . . . . . . 79--85
Dominik Szczerba and
Gábor Székely Computational model of flow-tissue
interactions in intussusceptive
angiogenesis . . . . . . . . . . . . . . 87--97
Edmund Christiansen and
Lars Garby and
Thorkild I. A. Sòrensen Quantitative analysis of the energy
requirements for development of obesity 99--106
M. R. Bennett and
L. Farnell and
W. G. Gibson A quantitative description of the
contraction of blood vessels following
the release of noradrenaline from
sympathetic varicosities . . . . . . . . 107--122
Jörg W. Stucki and
Hans-Uwe Simon Mathematical modeling of the regulation
of caspase-3 activation and degradation 123--131
F. Hayot and
C. Jayaprakash A feedforward loop motif in
transcriptional regulation: induction
and repression . . . . . . . . . . . . . 133--143
Yu-Dong Cai and
Guo-Ping Zhou and
Kuo-Chen Chou Predicting enzyme family classes by
hybridizing gene product composition and
pseudo-amino acid composition . . . . . 145--149
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Marco Archetti Accumulation of deleterious mutations in
hybridogenetic organisms . . . . . . . . 151--152
Nuno Sepúlveda and
Laurent Boucontet and
Pablo Pereira and
Jorge Carneiro Stochastic Modeling of T cell receptor $
\gamma $ gene rearrangement . . . . . . 153--165
Mayumi Seto and
Tasuku Akagi Daisyworld inhabited with daisies
incorporating a seed size/number
trade-off: the mechanism of negative
feedback on selection from a standpoint
of the competition theory . . . . . . . 167--172
Hiroaki Takagi and
Kunihiko Kaneko Dynamical systems basis of
metamorphosis: diversity and plasticity
of cellular states in reaction diffusion
network . . . . . . . . . . . . . . . . 173--186
Richard Fox Directed molecular evolution by machine
learning and the influence of nonlinear
interactions . . . . . . . . . . . . . . 187--199
Rajan Patel and
Ira M. Longini and
M. Elizabeth Halloran Finding optimal vaccination strategies
for pandemic influenza using genetic
algorithms . . . . . . . . . . . . . . . 201--212
Timothy C. Reluga and
Steven Viscido Simulated evolution of selfish herd
behavior . . . . . . . . . . . . . . . . 213--225
Denise M. Wolf and
Vijay V. Vazirani and
Adam P. Arkin Diversity in times of adversity:
probabilistic strategies in microbial
survival games . . . . . . . . . . . . . 227--253
Denise M. Wolf and
Vijay V. Vazirani and
Adam P. Arkin A microbial modified prisoner's dilemma
game: how frequency-dependent selection
can lead to random phase variation . . . 255--262
J. P. Keener A model for length control of flagellar
hooks of Salmonella typhimurium . . . . 263--275
A. J. Hulbert On the importance of fatty acid
composition of membranes for aging . . . 277--288
T. K. Soboleva and
I. Vetharaniam and
A. J. Nixon and
R. Montenegro and
A. J. Pearson and
J. Sneyd Mathematical modelling of
prolactin-receptor interaction and the
corollary for prolactin receptor gene
expression in skin . . . . . . . . . . . 289--298
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Mauricio Rodríguez and
Theresa A. Good and
Melinda E. Wales and
Jean P. Hua and
James R. Wild Modeling allosteric regulation of de
novo pyrimidine biosynthesis in
\bionameEscherichia coli . . . . . . . . 299--310
V. Vainstein and
Y. Ginosar and
M. Shoham and
D. O. Ranmar and
A. Ianovski and
Z. Agur The complex effect of granulocyte
colony-stimulating factor on human
granulopoiesis analyzed by a new
physiologically-based mathematical model 311--327
John J. Welch and
David Waxman The nk model and population genetics . . 329--340
Alexander R. A. Anderson and
Bakhtier N. Vasiev An individual based model of rippling
movement in a myxobacteria population 341--349
Anshul Dubey and
Matthew J. Realff and
Jay H. Lee and
Andreas S. Bommarius Support vector machines for learning to
identify the critical positions of a
protein . . . . . . . . . . . . . . . . 351--361
E. \`E. Saftenku Modeling of slow glutamate diffusion and
AMPA receptor activation in the
cerebellar glomerulus . . . . . . . . . 363--382
J. C. W. Locke and
A. J. Millar and
M. S. Turner Modelling genetic networks with noisy
and varied experimental data: the
circadian clock in Arabidopsis thaliana 383--393
Xiting Yan and
Minghua Deng and
Wing K. Fung and
Minping Qian Detecting differentially expressed genes
by relative entropy . . . . . . . . . . 395--402
Alexey V. Melkikh and
Vladimir D. Seleznev Models of active transport of ions in
biomembranes of various types of cells 403--412
Jari Saramäki and
Kimmo Kaski Modelling development of epidemics with
dynamic small-world networks . . . . . . 413--421
Wolfram Liebermeister Response to temporal parameter
fluctuations in biochemical networks . . 423--438
William P. Halford and
Keith J. Halford and
Amy T. Pierce Mathematical analysis demonstrates that
interferons-$ \beta $ and -$ \gamma $
interact in a multiplicative manner to
disrupt herpes simplex virus replication 439--454
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Wei-Yin Chen and
Sankar Bokka Stochastic modeling of nonlinear
epidemiology . . . . . . . . . . . . . . 455--470
Gottfried Sachs Aerodynamic yawing moment
characteristics of bird wings . . . . . 471--478
Victor Sivozhelezov and
Claudio Nicolini Homology modeling of cytochrome P450scc
and the mutations for optimal
amperometric sensor . . . . . . . . . . 479--485
Mauro A. A. Castro and
Tor T. G. Onsten and
Rita M. C. de Almeida and
José C. F. Moreira Profiling cytogenetic diversity with
entropy-based karyotypic analysis . . . 487--495
Leighton Pritchard and
Dave Corne and
Douglas Kell and
Jem Rowland and
Mike Winson A general model of error-prone PCR . . . 497--509
Laura A. Miller Structural dynamics and resonance in
plants with nonlinear stiffness . . . . 511--524
A. Tao and
L. Tao and
C. Nicholson Cell cavities increase tortuosity in
brain extracellular space . . . . . . . 525--536
Holger Dette and
Viatcheslav B. Melas and
Andrey Pepelyshev and
Nikolay Strigul Robust and efficient design of
experiments for the Monod model . . . . 537--550
Dan Ladley and
Seth Bullock The role of logistic constraints in
termite construction of chambers and
tunnels . . . . . . . . . . . . . . . . 551--564
D. M. Lewis A simple model of plankton population
dynamics coupled with a LES of the
surface mixed layer . . . . . . . . . . 565--591
Adam Kent and
Susanne Plesner Jensen and
C. Patrick Doncaster Model of microtine cycles caused by
lethal toxins in non-preferred food
plants . . . . . . . . . . . . . . . . . 593--604
Anonymous Author Index . . . . . . . . . . . . . . 605--606
Anonymous Subject Index . . . . . . . . . . . . . 607--612
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Morten Gram Pedersen A comment on noise enhanced bursting in
pancreatic $ \beta $-cells . . . . . . . 1--3
M. Keith Chen and
Marc Hauser Modeling reciprocation and cooperation
in primates: evidence for a punishing
strategy . . . . . . . . . . . . . . . . 5--12
Natalie Arkus A mathematical model of cellular
apoptosis and senescence through the
dynamics of telomere loss . . . . . . . 13--32
Alessandro Ludovisi and
Piera Pandolfi and
Maria Illuminata Taticchi The strategy of ecosystem development:
specific dissipation as an indicator of
ecosystem maturity . . . . . . . . . . . 33--43
Kourosh Saberi and
Agavni Petrosyan Neural cross-correlation and signal
decorrelation: insights into coding of
auditory space . . . . . . . . . . . . . 45--56
R. Miftahof and
E. Fedotov Intestinal propulsion of a solid
non-deformable bolus . . . . . . . . . . 57--70
Michael Kücken and
Alan C. Newell Fingerprint formation . . . . . . . . . 71--83
Sylvain Billiard and
Charlotte Faurie and
Michel Raymond Maintenance of handedness polymorphism
in humans: a frequency-dependent
selection model . . . . . . . . . . . . 85--93
Maria Christianou and
Bo Ebenman Keystone species and vulnerable species
in ecological communities: strong or
weak interactors? . . . . . . . . . . . 95--103
M. J. Gómez-Benito and
J. M. García-Aznar and
J. H. Kuiper and
M. Doblaré Influence of fracture gap size on the
pattern of long bone healing: a
computational study . . . . . . . . . . 105--119
Borbala Mazzag and
Christopher J. Tignanelli and
Gregory D. Smith The effect of residual Ca$^{2+}$ on the
stochastic gating of Ca$^{2+}$-regulated
Ca$^{2+}$ channel models . . . . . . . . 121--150
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Romulus Breban and
Sally Blower The reinfection threshold does not exist 151--152
M. Zheng and
Y. Kashimori and
O. Hoshino and
K. Fujita and
T. Kambara Behavior pattern (innate action) of
individuals in fish schools generating
efficient collective evasion from
predation . . . . . . . . . . . . . . . 153--167
Jacob P. Couturier and
Robert S. Root-Bernstein HIV may produce inhibitory microRNAs
(miRNAs) that block production of CD28,
CD4 and some interleukins . . . . . . . 169--184
Francisco J. P. Lopes and
Carlos E. Vanario-Alonso and
Paulo M. Bisch and
Fernando M. C. Vieira A kinetic mechanism for Drosophila
bicoid cooperative binding . . . . . . . 185--198
John A. Byers Chemical constraints on the evolution of
olfactory communication channels of
moths . . . . . . . . . . . . . . . . . 199--206
Xin-Sheng Hu and
Fangliang He Background selection and population
differentiation . . . . . . . . . . . . 207--219
Ehsan Jabbarzadeh and
Cameron F. Abrams Chemotaxis and random motility in
unsteady chemoattractant fields: a
computational study . . . . . . . . . . 221--232
Angel Sánchez and
José A. Cuesta Altruism may arise from individual
selection . . . . . . . . . . . . . . . 233--240
Yoshihiro Morishita and
Tetsuya J. Kobayashi and
Kazuyuki Aihara Evaluation of the performance of
mechanisms for noise attenuation in a
single-gene expression . . . . . . . . . 241--264
Arndt Telschow and
Norio Yamamura and
John H. Werren Bidirectional cytoplasmic
incompatibility and the stable
coexistence of two Wolbachia strains in
parapatric host populations . . . . . . 265--274
Marc Barthélemy and
Alain Barrat and
Romualdo Pastor-Satorras and
Alessandro Vespignani Dynamical patterns of epidemic outbreaks
in complex heterogeneous networks . . . 275--288
D. A. White Architectural mutation and leaf form,
for the palmate series . . . . . . . . . 289--301
Anonymous announcement . . . . . . . . . . . . . . 303--303
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Jonathan M. Yearsley and
Ilias Kyriazakis and
Iain J. Gordon and
Sarah L. Johnston and
John R. Speakman and
Bert J. Tolkamp and
Andrew W. Illius A life history model of somatic damage
associated with resource acquisition:
damage protection or prevention? . . . . 305--317
Hani Goodarzi and
Hamed Shateri Najafabadi and
Kasra Hassani and
Hamed Ahmadi Nejad and
Noorossadat Torabi On the optimality of the genetic code,
with the consideration of coevolution
theory by comparison of prominent cost
measure matrices . . . . . . . . . . . . 318--325
Helen Trottier and
Pierre Philippe Scaling properties of childhood
infectious diseases epidemics before and
after mass vaccination in Canada . . . . 326--337
Natalia L. Komarova and
Vladimir Mironov On the role of endothelial progenitor
cells in tumor neovascularization . . . 338--349
Phil Hanlon and
Andy Lorenz A computational method to detect
epistatic effects contributing to a
quantitative trait . . . . . . . . . . . 350--364
Wei Li and
Shuo-Xing Dou and
Peng-Ye Wang The histone octamer influences the
wrapping direction of DNA on it:
Brownian dynamics simulation of the
nucleosome chirality . . . . . . . . . . 365--372
Ford Ballantyne IV and
Andrew J. Kerkhoff Reproductive correlation and
mean-variance scaling of reproductive
output for a forest model . . . . . . . 373--380
Y. Lecarpentier and
F.-X. Blanc and
J. Quillard and
J.-L. Hébert and
X. Krokidis and
C. Coirault Statistical mechanics of myosin
molecular motors in skeletal muscles . . 381--392
Arne Traulsen and
Anirvan M. Sengupta and
Martin A. Nowak Stochastic evolutionary dynamics on two
levels . . . . . . . . . . . . . . . . . 393--401
R. M. Canals and
L. S. Emeterio and
J. Peralta Autotoxicity in Lolium rigidum:
analyzing the role of chemically
mediated interactions in annual plant
populations . . . . . . . . . . . . . . 402--407
Niamh C. Nowlan and
Patrick J. Prendergast Evolution of mechanoregulation of bone
growth will lead to non-optimal bone
phenotypes . . . . . . . . . . . . . . . 408--418
Hiro-Sato Niwa Power-law scaling in
dimension-to-biomass relationship of
fish schools . . . . . . . . . . . . . . 419--430
Madalena Chaves and
Réka Albert and
Eduardo D. Sontag Robustness and fragility of Boolean
models for genetic regulatory networks 431--449
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Anonymous Pages 305--450 (7 August 2005) . . . . . ??
Alexander G. Dimitrov Internodal sodium channels ensure active
processes under myelin manifesting in
depolarizing afterpotentials . . . . . . 451--462
Steven M. White and
K. A. Jane White Relating coupled map lattices to
integro-difference equations:
dispersal-driven instabilities in
coupled map lattices . . . . . . . . . . 463--475
Kieran Smallbone and
David J. Gavaghan and
Robert A. Gatenby and
Philip K. Maini The role of acidity in solid tumour
growth and invasion . . . . . . . . . . 476--484
M. V. Laptev and
N. K. Nikulin Synchronization of oscillations of
proliferation of keratinocytes in
psoriatic skin by external periodic
force: a mathematical model . . . . . . 485--494
Yongzhen Pei and
Lansun Chen and
Qingrui Zhang and
Changguo Li Extinction and permanence of one-prey
multi-predators of Holling type II
function response system with impulsive
biological control . . . . . . . . . . . 495--503
J. Krishnan and
P. A. Iglesias A modelling framework describing the
enzyme regulation of membrane lipids
underlying gradient perception in
Dictyostelium cells II: Input-output
analysis . . . . . . . . . . . . . . . . 504--520
Ugo Bastolla and
Michael Lässig and
Susanna C. Manrubia and
Angelo Valleriani Biodiversity in model ecosystems, I:
coexistence conditions for competing
species . . . . . . . . . . . . . . . . 521--530
Ugo Bastolla and
Michael Lässig and
Susanna C. Manrubia and
Angelo Valleriani Biodiversity in model ecosystems, II:
species assembly and food web structure 531--539
Kristjan Plaetzer and
S. Randall Thomas and
Renate Falkner and
Gernot Falkner The microbial experience of
environmental phosphate fluctuations. An
essay on the possibility of putting
intentions into cell biochemistry . . . 540--554
Xuan Xiao and
Shihuang Shao and
Yongsheng Ding and
Zhengde Huang and
Xiaojing Chen and
Kuo-Chen Chou An application of gene comparative image
for predicting the effect on replication
ratio by HBV virus gene missense
mutation . . . . . . . . . . . . . . . . 555--565
Tom Lenaerts and
Bart Jansen and
Karl Tuyls and
Bart De Vylder The evolutionary language game: An
orthogonal approach . . . . . . . . . . 566--582
Satoshi Kanazawa Big and tall parents have more sons:
Further generalizations of the
Trivers--Willard hypothesis . . . . . . 583--590
Satoshi Takahashi and
Michio Hori Coexistence of competing species by the
oscillation of polymorphisms . . . . . . 591--596
Anonymous Author Index . . . . . . . . . . . . . . 597--598
Anonymous Subject Index . . . . . . . . . . . . . 599--603
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M. Bahman Bahramian and
Helmut Zarbl Erratum to ``GENE impedence: a natural
process for control of gene expression
and the origin of RNA interference'':
[J. Theor. Biol. \bf 233 (2005)
301--314] . . . . . . . . . . . . . . . 1--1
Ichiji Tasaki Repetitive abrupt structural changes in
polyanionic gels: a comparison with
analogous processes in nerve fibers . . 2--11
György Károlyi and
Zoltán Neufeld and
István Scheuring Rock-scissors-paper game in a chaotic
flow: The effect of dispersion on the
cyclic competition of microorganisms . . 12--20
John H. Schwacke and
Eberhard O. Voit Computation and analysis of
time-dependent sensitivities in
Generalized Mass Action systems . . . . 21--38
Rob DeConde and
Peter S. Kim and
Doron Levy and
Peter P. Lee Post-transplantation dynamics of the
immune response to chronic myelogenous
leukemia . . . . . . . . . . . . . . . . 39--59
A. St Clair Gibson and
J. H. Goedecke and
Y. X. Harley and
L. J. Myers and
M. I. Lambert and
T. D. Noakesa and
E. V. Lambert Metabolic setpoint control mechanisms in
different physiological systems at rest
and during exercise . . . . . . . . . . 60--72
Julian F. V. Vincent Deconstructing the design of a
biological material . . . . . . . . . . 73--78
C. Pagnutti and
M. Anand and
M. Azzouz Lattice geometry, gap formation and
scale invariance in forests . . . . . . 79--87
Amos Panet and
Efrat Braun and
Alik Honigman and
Israel Steiner Involvement of cellular death signals in
the reactivation of herpes simplex virus
type 1 and lambda bacteriophage from a
latent state . . . . . . . . . . . . . . 88--94
Rosendo A. Yunes The evolution of the human mind and
logic-mathematics structures . . . . . . 95--110
M. Gabriela M. Gomes and
Lisa J. White and
Graham F. Medley The reinfection threshold . . . . . . . 111--113
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M. Schulin-Zeuthen and
J. B. Lopes and
E. Kebreab and
D. M. S. S. Vitti and
A. L. Abdalla and
M. DeL. Haddad and
L. A. Crompton and
J. France Effects of phosphorus intake on
phosphorus flow in growing pigs:
Application and comparison of two models 115--125
Geoff Wild and
Peter D. Taylor A kin-selection approach to the
resolution of sex-ratio conflict between
mates . . . . . . . . . . . . . . . . . 126--136
Jane M. Heffernan and
Lindi M. Wahl Monte Carlo estimates of natural
variation in HIV infection . . . . . . . 137--153
P. D. Shipman and
A. C. Newell Polygonal planforms and phyllotaxis on
plants . . . . . . . . . . . . . . . . . 154--197
M. R. Miller and
A. White and
M. Boots The evolution of host resistance:
Tolerance and control as distinct
strategies . . . . . . . . . . . . . . . 198--207
Mohammed Zeineddine and
Vincent A. A. Jansen The evolution of stability in a
competitive system . . . . . . . . . . . 208--215
Peter Clote and
Leszek Gasieniec and
Roman Kolpakov and
Evangelos Kranakis and
Danny Krizanc On realizing shapes in the theory of RNA
neutral networks . . . . . . . . . . . . 216--227
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Matthew V. Thompson Scaling phloem transport: Elasticity and
pressure-concentration waves . . . . . . 229--241
Daniel M. Keenan and
Somesh Chattopadhyay and
Johannes D. Veldhuis Composite model of time-varying
appearance and disappearance of
neurohormone pulse signals in blood . . 242--255
Hartmut Kuthan Temporal fluctuation of nuclear pore
complex localization by single diffusing
mRNP complexes . . . . . . . . . . . . . 256--262
Stefan Van Dongen and
Willem Talloen and
Luc Lens High variation in developmental
instability under non-normal
developmental error: a Bayesian
perspective . . . . . . . . . . . . . . 263--275
Amit Huppert and
Bernd Blasius and
Ronen Olinky and
Lewi Stone A model for seasonal phytoplankton
blooms . . . . . . . . . . . . . . . . . 276--290
Atsushi Mochizuki An analytical study of the number of
steady states in gene regulatory
networks . . . . . . . . . . . . . . . . 291--310
Mohammad Haeri and
Yashar Sarbaz and
Shahriar Gharibzadeh Modeling the Parkinson's tremor and its
treatments . . . . . . . . . . . . . . . 311--322
L. Dupuy and
T. Fourcaud and
A. Stokes and
F. Danjon A density-based approach for the
modelling of root architecture:
application to Maritime pine
(\bionamePinus pinaster Ait.) root
systems . . . . . . . . . . . . . . . . 323--334
Wei Wei and
Stephen M. Krone Spatial invasion by a mutant pathogen 335--348
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Wolfgang Marwan and
Arumugam Sujatha and
Christine Starostzik Reconstructing the regulatory network
controlling commitment and sporulation
in \bionamePhysarum polycephalum based
on hierarchical Petri Net modelling and
simulation . . . . . . . . . . . . . . . 349--365
Francois G. Feugier and
A. Mochizuki and
Y. Iwasa Self-organization of the vascular system
in plant leaves: Inter-dependent
dynamics of auxin flux and carrier
proteins . . . . . . . . . . . . . . . . 366--375
Arancha Casal and
Cenk Sumen and
Timothy E. Reddy and
Mark S. Alber and
Peter P. Lee Agent-based modeling of the context
dependency in T cell recognition . . . . 376--391
Lee Alan Dugatkin and
Michael Perlin and
Ronald Atlas Antibiotic resistance and the evolution
of group-beneficial traits. II: a
metapopulation model . . . . . . . . . . 392--396
Markku J. Lampinen and
Tuula Noponen Electric dipole theory and
thermodynamics of actomyosin molecular
motor in muscle contraction . . . . . . 397--421
J. Barral P. and
L. Cantini and
A. Hasmy and
J. Jiménez and
A. Marcano Correlation between strand asymmetry and
phylogeny in mitochondrial DNA . . . . . 422--426
János Izsák A pilot study on the frequency structure
of histological neoplasm diagnoses in
rats . . . . . . . . . . . . . . . . . . 427--437
Tong Zhou and
J. M. Carlson and
John Doyle Evolutionary dynamics and highly
optimized tolerance . . . . . . . . . . 438--447
Nicolas Foray and
Anne-Marie Charvet and
David Duchemin and
Vincent Favaudon and
Daniel Lavalette The repair rate of radiation-induced DNA
damage: a stochastic interpretation
based on the Gamma function . . . . . . 448--458
Anonymous Author Index . . . . . . . . . . . . . . EX459--EX460
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Anonymous Subject Index . . . . . . . . . . . . . EX461--EX464
Peter Schofield and
Mark Chaplain and
Stephen Hubbard Evolution of searching and life history
characteristics in individual-based
models of host-parasitoid-microbe
associations . . . . . . . . . . . . . . 1--16
Noah A. Rosenberg A sharp minimum on the mean number of
steps taken in adaptive walks . . . . . 17--22
Thorsten Koslowski and
Fabian Zehender Towards a quantitative understanding of
horizontal gene transfer: a kinetic
model . . . . . . . . . . . . . . . . . 23--29
Steffen Liepelt and
Jan A. Freund and
Lutz Schimansky-Geier and
Alexander Neiman and
David F. Russell Information processing in noisy burster
models of sensory neurons . . . . . . . 30--40
Peter Ruoff and
Melinda K. Christensen and
Vijay K. Sharma PER/TIM-mediated amplification, gene
dosage effects and temperature
compensation in an interlocking-feedback
loop model of the Drosophila circadian
clock . . . . . . . . . . . . . . . . . 41--57
Sandip Kar and
Deb Shankar Ray Sustained simultaneous glycolytic and
insulin oscillations in $ \beta $-cells 58--66
Tobias van Kooten and
André M. de Roos and
Lennart Persson Bistability and an Allee effect as
emergent consequences of stage-specific
predation . . . . . . . . . . . . . . . 67--74
C. Scapoli and
H. Goebl and
S. Sobota and
E. Mamolini and
A. Rodriguez-Larralde and
I. Barrai Surnames and dialects in France:
Population structure and cultural
evolution . . . . . . . . . . . . . . . 75--86
Mathieu Joron and
Yoh Iwasa The evolution of a Müllerian mimic in a
spatially distributed community . . . . 87--103
Hiroto Shoji and
Yoh Iwasa Labyrinthine versus straight-striped
patterns generated by two-dimensional
Turing systems . . . . . . . . . . . . . 104--116
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Caroline Colijn and
Michael C. Mackey A mathematical model of hematopoiesis
--- I. Periodic chronic myelogenous
leukemia . . . . . . . . . . . . . . . . 117--132
Caroline Colijn and
Michael C. Mackey A mathematical model of hematopoiesis:
II. Cyclical neutropenia . . . . . . . . 133--146
G. B. Deane and
M. Dale Stokes A quantitative model for flow-induced
bioluminescence in dinoflagellates . . . 147--169
Andy Ruina and
John E. A. Bertram and
Manoj Srinivasan A collisional model of the energetic
cost of support work qualitatively
explains leg sequencing in walking and
galloping, pseudo-elastic leg behavior
in running and the walk-to-run
transition . . . . . . . . . . . . . . . 170--192
Joe Yuichiro Wakano Evolution of extraordinary female-biased
sex ratios: The optimal schedule of sex
ratio in local mate competition . . . . 193--202
Hamed Shateri Najafabadi and
Hani Goodarzi and
Noorossadat Torabi Optimality of codon usage in
\bionameEscherichia coli due to load
minimization . . . . . . . . . . . . . . 203--209
Jürg Bähler and
Sasa Svetina A logical circuit for the regulation of
fission yeast growth modes . . . . . . . 210--218
Massimo Di Giulio Structuring of the genetic code took
place at acidic pH . . . . . . . . . . . 219--226
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Gillian E. Yates and
Mark Broom A stochastic model of the distribution
of unequal competitors between resource
patches . . . . . . . . . . . . . . . . 227--237
Anna Fukshansky Selection, mutation and sexual
reproduction in an infinite haploid
population with a genome of finite
length . . . . . . . . . . . . . . . . . 238--244
Osnat Yaniv An asymmetric parental investment
conflict with continuous strategy sets 245--256
Giora Enden and
You H. Zhang and
José C. Merchuk A model of the dynamics of insect cell
infection at low multiplicity of
infection . . . . . . . . . . . . . . . 257--264
Mario W. Gomes and
Andy L. Ruina A five-link 2D brachiating ape model
with life-like zero-energy-cost motions 265--278
B. K. Dellen and
M. J. Barber and
M. L. Ristig and
J. Hescheler and
H. Sauer and
M. Wartenberg [Ca$^{2+}$] oscillations in a model of
energy-dependent Ca$^{2+}$ uptake by the
endoplasmic reticulum . . . . . . . . . 279--290
Anastassia M. Makarieva and
Victor G. Gorshkov and
Bai-Lian Li Revising the distributive networks
models of West, Brown and Enquist (1997)
and Banavar, Maritan and Rinaldo (1999):
Metabolic inequity of living tissues
provides clues for the observed
allometric scaling rules . . . . . . . . 291--301
Svetlana Bunimovich-Mendrazitsky and
Lewi Stone Modeling polio as a disease of
development . . . . . . . . . . . . . . 302--315
Gheorghe Craciun and
Anthony Brown and
Avner Friedman A dynamical system model of
neurofilament transport in axons . . . . 316--322
K. Michaelian Thermodynamic stability of ecosystems 323--335
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Steve Alpern and
Diane Reyniers Strategic mating with common preferences 337--354
Martin Willensdorfer and
Martin A. Nowak Mutation in evolutionary games can
increase average fitness at equilibrium 355--362
Jacek Mie\ckisz and
Tadeusz Platkowski Population dynamics with a stable
efficient equilibrium . . . . . . . . . 363--368
O. V. Aslanidi and
R. H. Clayton and
J. L. Lambert and
A. V. Holden Dynamical and cellular
electrophysiological mechanisms of ECG
changes during ischaemia . . . . . . . . 369--381
R. V. Overgaard and
J. E. Henriksen and
H. Madsen Insights to the minimal model of insulin
secretion through a mean-field beta cell
model . . . . . . . . . . . . . . . . . 382--389
Filippo Castiglione and
Federico Toschi and
Massimo Bernaschi and
Sauro Succi and
Roberta Benedetti and
Brunangelo Falini and
Arcangelo Liso Computational modeling of the immune
response to tumor antigens . . . . . . . 390--400
Cheol-Min Ghim and
Kwang-Il Goh and
Byungnam Kahng Lethality and synthetic lethality in the
genome-wide metabolic network of
\bionameEscherichia coli . . . . . . . . 401--411
Matthijs van Veelen On the use of the Price equation . . . . 412--426
Paul Brazhnik Inferring gene networks from
steady-state response to single-gene
perturbations . . . . . . . . . . . . . 427--440
Anonymous Author Index . . . . . . . . . . . . . . EX441--EX442
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Anonymous Subject Index . . . . . . . . . . . . . EX443--EX446
Hiroshi C. Ito and
Takashi Ikegami Food-web formation with recursive
evolutionary branching . . . . . . . . . 1--10
Yoshiyuki Usami Theoretical study on the body form and
swimming pattern of Anomalocaris based
on hydrodynamic simulation . . . . . . . 11--17
Andrew Morozov and
Sergei Petrovskii and
Bai-Lian Li Spatiotemporal complexity of patchy
invasion in a predator-prey system with
the Allee effect. . . . . . . . . . . . 18--35
A. Bannink and
J. Kogut and
J. Dijkstra and
J. France and
E. Kebreab and
A. M. Van Vuuren and
S. Tamminga Estimation of the stoichiometry of
volatile fatty acid production in the
rumen of lactating cows . . . . . . . . 36--51
Bernard Jeune and
Denis Barabé A stochastic approach to phyllotactic
patterns analysis . . . . . . . . . . . 52--59
Dorothee von Laer and
Susanne Hasselmann and
Klaus Hasselmann Impact of gene-modified T cells on HIV
infection dynamics . . . . . . . . . . . 60--77
Sutirth Dey and
Sugat Dabholkar and
Amitabh Joshi The effect of migration on
metapopulation stability is
qualitatively unaffected by demographic
and spatial heterogeneity . . . . . . . 78--84
Yue-Lan Wang and
Ju Bao and
Yan Sun and
Jie Yang Energy and structural analysis of double
nucleic acid triplets . . . . . . . . . 85--103
Michael A. Fishman and
Lewi Stone Trade up polygyny and breeding synchrony
in avian populations . . . . . . . . . . 104--110
Patrick Felix Oliver Lindner and
Bernd Hitzmann Experimental design for optimal
parameter estimation of an enzyme
kinetic process based on the analysis of
the Fisher information matrix . . . . . 111--123
Emmanouil D. Karagiannis and
Aleksander S. Popel Distinct modes of collagen type I
proteolysis by matrix metalloproteinase
(MMP) 2 and membrane type I MMP during
the migration of a tip endothelial cell:
Insights from a computational model . . 124--145
Yuri Mansury and
Mark Diggory and
Thomas S. Deisboeck Evolutionary game theory in an
agent-based brain tumor model: Exploring
the `Genotype-Phenotype' link . . . . . 146--156
Dominique Chu and
Jonathan Rowe and
Hoong-Chien Lee Evaluation of the current models for the
evolution of bacterial DNA uptake signal
sequences . . . . . . . . . . . . . . . 157--166
Pierre Wong The behavior of the human erythrocyte as
an imperfect osmometer: a hypothesis . . 167--171
Yu-Dong Cai and
Kai-Yan Feng and
Wen-Cong Lu and
Kuo-Chen Chou Using LogitBoost classifier to predict
protein structural classes . . . . . . . 172--176
S. Bhattacharyya and
D. K. Bhattacharya Pest control through viral disease:
Mathematical modeling and analysis . . . 177--197
Michael B. Bonsall The evolution of anisogamy: The adaptive
significance of damage, repair and
mortality . . . . . . . . . . . . . . . 198--210
Sharon R. Bullimore and
Jeremy F. Burn Consequences of forward translation of
the point of force application for the
mechanics of running . . . . . . . . . . 211--219
José A. García and
Luis E. Soto-Ramírez and
Germinal Cocho and
Tzipe Govezensky and
Marco V. José HIV-1 dynamics at different time scales
under antiretroviral therapy . . . . . . 220--229
Ramón Hegedüs and
Ákos Horváth and
Gábor Horváth Why do dusk-active cockchafers detect
polarization in the green? The
polarization vision in Melolontha
melolontha is tuned to the high
polarized intensity of downwelling light
under canopies during sunset . . . . . . 230--244
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Harold P. de Vladar Density-dependence as a size-independent
regulatory mechanism . . . . . . . . . . 245--256
Mark L. Field and
Omar Khan and
Jayasimha Abbaraju and
Joseph F. Clark Functional compartmentation of glycogen
phosphorylase with creatine kinase and
Ca$^{2+}$ ATPase in skeletal muscle . . 257--268
Paulo F. F. Almeida and
Frederik W. Wiegel A simple theory of peptide interactions
on a membrane surface: Excluded volume
and entropic order . . . . . . . . . . . 269--278
H. Allen Orr The distribution of fitness effects
among beneficial mutations in Fisher's
geometric model of adaptation . . . . . 279--285
Robert W. Finkel Model for energy oscillations in cells 286--289
Gerhard A. Holzapfel Determination of material models for
arterial walls from uniaxial extension
tests and histological structure . . . . 290--302
D.-E. Bettendorff-Bakman and
P. Schmid and
P. P. Lunkenheimer and
P. Niederer A finite element study relating to the
rapid filling phase of the human
ventricles . . . . . . . . . . . . . . . 303--316
Edward E. Allen and
Jacquelyn S. Fetrow and
Larry W. Daniel and
Stan J. Thomas and
David J. John Algebraic dependency models of protein
signal transduction networks from
time-series data . . . . . . . . . . . . 317--330
R. Cassia-Moura and
M. A. F. Gomes A crumpled surface having transverse
attractive interactions as a simplified
model with biological significance . . . 331--339
Kelvin J. Richards and
Stuart J. Brentnall The impact of diffusion and stirring on
the dynamics of interacting populations 340--347
Tomasz Lipniacki and
Pawe\l Paszek and
Anna Marciniak-Czochra and
Allan R. Brasier and
Marek Kimmel Transcriptional stochasticity in gene
expression . . . . . . . . . . . . . . . 348--367
Ryan Zurakowski and
Andrew R. Teel A model predictive control based
scheduling method for HIV therapy . . . 368--382
William H. James Possible constraints on adaptive
variation in sex ratio at birth in
humans and other primates . . . . . . . 383--394
Yu-Dong Cai and
Kuo-Chen Chou Predicting membrane protein type by
functional domain composition and
pseudo-amino acid composition . . . . . 395--400
A. G. Rossberg and
H. Matsuda and
T. Amemiya and
K. Itoh Some properties of the speciation model
for food-web structure --- Mechanisms
for degree distributions and intervality 401--415
Orkun S. Soyer and
Marcel Salathé and
Sebastian Bonhoeffer Signal transduction networks: Topology,
response and biochemical processes . . . 416--425
L. A. Bach and
T. Helvik and
F. B. Christiansen The evolution of $n$-player
cooperation-threshold games and ESS
bifurcations . . . . . . . . . . . . . . 426--434
Shun-Hui Liu and
Song Sun and
Bo-Ping Han Viewing DVM via general behaviors of
zooplankton: a way bridging the success
of individual and population . . . . . . 435--448
C. Luo and
J. W. Clark and
T. A. Heming and
A. Bidani A macrophage cell model for pH and
volume regulation . . . . . . . . . . . 449--463
Michiko Nosaka Geometrical correspondence identified
and a new interaction unit suggested in
striated muscle . . . . . . . . . . . . 464--473
Alona Ben-Tal Simplified models for gas exchange in
the human lungs . . . . . . . . . . . . 474--495
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John Vandermeer Omnivory and the stability of food webs 497--504
P. Rothnie and
D. Kabaso and
P. R. Hof and
B. I. Henry and
S. L. Wearne Functionally relevant measures of
spatial complexity in neuronal dendritic
arbors . . . . . . . . . . . . . . . . . 505--526
Adam Tofilski Influence of caste polyethism on
longevity of workers in social insect
colonies . . . . . . . . . . . . . . . . 527--531
Olivier Cinquin Fast-tracking morphogen diffusion . . . 532--540
Alan Grafen Optimization of inclusive fitness . . . 541--563
G. Caron-Lormier and
J. P. Masson and
N. Ménard and
J. S. Pierre A branching process, its application in
biology: Influence of demographic
parameters on the social structure in
mammal groups . . . . . . . . . . . . . 564--574
D. Bauer and
R. Grebe and
A. Ehrlacher A new method to model change in
cutaneous blood flow due to mechanical
skin irritation: Part I: Comparison
between experimental and numerical data 575--587
D. Bauer and
R. Grebe and
A. Ehrlacher A new method to model change in
cutaneous blood flow due to mechanical
skin irritation: Part II: Parameter
identification procedure . . . . . . . . 588--596
Pierre Auger and
Bob W. Kooi and
Rafael Bravo de la Parra and
Jean-Christophe Poggiale Bifurcation analysis of a predator-prey
model with predators using hawk and dove
tactics . . . . . . . . . . . . . . . . 597--607
Otto Schmidt and
Andreas Schreiber Integration of cell adhesion reactions
--- a balance of forces? . . . . . . . . 608--615
D. A. Rand and
B. V. Shulgin and
J. D. Salazar and
A. J. Millar Uncovering the design principles of
circadian clocks: Mathematical analysis
of flexibility and evolutionary goals 616--635
Jun Nishii An analytical estimation of the energy
cost for legged locomotion . . . . . . . 636--645
Michio Kondoh Does foraging adaptation create the
positive complexity-stability
relationship in realistic food-web
structure? . . . . . . . . . . . . . . . 646--651
Pali Sen and
Denis Bell A model for the interaction of two
chemicals . . . . . . . . . . . . . . . 652--656
Hamed Shateri Najafabadi and
Hani Goodarzi and
Noorossadat Torabi and
Setareh Sadat Banihosseini Applying a neural network to predict the
thermodynamic parameters for an expanded
nearest-neighbor model . . . . . . . . . 657--665
Eun-Hyoung Park and
Dominique M. Durand Role of potassium lateral diffusion in
non-synaptic epilepsy: a computational
study . . . . . . . . . . . . . . . . . 666--682
Shuji Ishihara and
Kunihiko Kaneko Turing pattern with proportion
preservation . . . . . . . . . . . . . . 683--693
N. G. Cogan Effects of persister formation on
bacterial response to dosing . . . . . . 694--703
Steven Sevush Single-neuron theory of consciousness 704--725
Anne Kupczok and
Peter Dittrich Determinants of simulated RNA evolution 726--735
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A. P. Quayle and
S. Bullock Modelling the evolution of genetic
regulatory networks . . . . . . . . . . 737--753
Catherine Foley and
Samuel Bernard and
Michael C. Mackey Cost-effective G-CSF therapy strategies
for cyclical neutropenia: Mathematical
modelling based hypotheses . . . . . . . 754--763
Bala Sundaram and
Andrew C. Poje and
Richard R. Veit and
Herve Nganguia Acoustical dead zones and the spatial
aggregation of whale strandings . . . . 764--770
Chaitanya A. Athale and
Thomas S. Deisboeck The effects of EGF-receptor density on
multiscale tumor growth patterns . . . . 771--779
Akiko Ohtsuki and
Akira Sasaki Epidemiology and disease-control under
gene-for-gene plant-pathogen interaction 780--794
Osnat Yaniv Properties of a mixed ESS candidate in
continuous strategy sets . . . . . . . . 795--804
Hsieh Fushing and
Chii-Ruey Hwang and
Hou-Cheng Lee and
Yen-Chiu Lan and
Shwu-Bin Horng Testing and mapping non-stationarity in
animal behavioral processes: a case
study on an individual female bean
weevil . . . . . . . . . . . . . . . . . 805--816
R. P. Araujo and
D. L. S. McElwain The role of mechanical host-tumour
interactions in the collapse of tumour
blood vessels and tumour growth dynamics 817--827
Axel Kowald and
Hans Lehrach and
Edda Klipp Alternative pathways as mechanism for
the negative effects associated with
overexpression of superoxide dismutase 828--840
L. G. de Pillis and
W. Gu and
A. E. Radunskaya Mixed immunotherapy and chemotherapy of
tumors: modeling, applications and
biological interpretations . . . . . . . 841--862
Kevin C. Chen Effects of tissue trauma on the
characteristics of microdialysis
zero-net-flux method sampling
neurotransmitters . . . . . . . . . . . 863--881
Lu Gaohua and
Hidenori Kimura A mathematical model of intracranial
pressure dynamics for brain hypothermia
treatment . . . . . . . . . . . . . . . 882--900
Agnieszka Grabska-Barwi\'nska and
Jaroslaw Zygierewicz A model of event-related EEG
synchronization changes in beta and
gamma frequency bands . . . . . . . . . 901--913
Lee G. Pedersen and
Lee Bartolotti and
Leping Li Deuterium and its role in the machinery
of evolution . . . . . . . . . . . . . . 914--918
David G. Mendoza-Cózatl and
Rafael Moreno-Sánchez Control of glutathione and phytochelatin
synthesis under cadmium stress. Pathway
modeling for plants . . . . . . . . . . 919--936
Simon H. Tindemans and
Norbert Kern and
Bela M. Mulder The diffusive vesicle supply center
model for tip growth in fungal hyphae 937--948
Juan-Carlos Letelier and
Jorge Soto-Andrade and
Flavio Guíñez Abarzúa and
Athel Cornish-Bowden and
María Luz Cárdenas Organizational invariance and metabolic
closure: Analysis in terms of $ (M, R) $
systems . . . . . . . . . . . . . . . . 949--961
D. Schley and
R. Carare-Nnadi and
C. P. Please and
V. H. Perry and
R. O. Weller Mechanisms to explain the reverse
perivascular transport of solutes out of
the brain . . . . . . . . . . . . . . . 962--974
Anonymous Author Index . . . . . . . . . . . . . . EX975--EX977
Anonymous IFC- Editorial board . . . . . . . . . . CO2
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Anonymous Subject Index . . . . . . . . . . . . . EX978--EX985
Daniel J. Hruschka and
Joseph Henrich Friendship, cliquishness, and the
emergence of cooperation . . . . . . . . 1--15
Wilbert Gamble Atherosclerosis: The carbonic anhydrase,
carbon dioxide, calcium concerted theory 16--21
Renato Casagrandi and
Marino Gatto The intermediate dispersal principle in
spatially explicit metapopulations . . . 22--32
John Fricks and
Hongyun Wang and
Timothy C. Elston A numerical algorithm for investigating
the role of the motor-cargo linkage in
molecular motor-driven transport . . . . 33--48
Julio Aracena and
Mauricio González and
Alejandro Zuñiga and
Marco A. Mendez and
Verónica Cambiazo Regulatory network for cell shape
changes during Drosophila ventral furrow
formation . . . . . . . . . . . . . . . 49--62
Wen Zhu and
Stephen Freeland The standard genetic code enhances
adaptive evolution of proteins . . . . . 63--70
Kam-Keung Lau and
Stephen Roberts and
Dora Biro and
Robin Freeman and
Jessica Meade and
Tim Guilford An edge-detection approach to
investigating pigeon navigation . . . . 71--78
Jörgen W. Weibull and
Marcus Salomonsson Natural selection and social preferences 79--92
Gottfried Sachs and
Mochammad Agoes Moelyadi Effect of slotted wing tips on yawing
moment characteristics . . . . . . . . . 93--100
Kunichika Tsumoto and
Tetsuya Yoshinaga and
Hitoshi Iida and
Hiroshi Kawakami and
Kazuyuki Aihara Bifurcations in a mathematical model for
circadian oscillations of clock genes 101--122
Michael W. J. Crosland and
John S. Scheibe and
Nan-Yao Su Soldier production strategy in lower
termites: a simpler alternative
hypothesis . . . . . . . . . . . . . . . 123--127
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Eörs Szathmáry and
Mauro Santos He would have deserved to live forever:
John Maynard Smith (1920--2004) . . . . 129--129
Joel R. Peck Altruism, sex, and inbreeding when the
genotype-phenotype map is additive . . . 130--140
Fyodor A. Kondrashov and
Alexey S. Kondrashov Role of selection in fixation of gene
duplications . . . . . . . . . . . . . . 141--151
Y. Bello and
D. Waxman Near-periodic substitution and the
genetic variance induced by
environmental change . . . . . . . . . . 152--160
Carlos López-Fanjul and
Almudena Fernández and
Miguel A. Toro The effect of genetic drift on the
variance/covariance components generated
by multilocus additive$ \times $
additive epistatic systems . . . . . . . 161--171
Sergey Gavrilets The Maynard Smith model of sympatric
speciation . . . . . . . . . . . . . . . 172--182
Hannelore Brandt and
Karl Sigmund The good, the bad and the
discriminator-Errors in direct and
indirect reciprocity . . . . . . . . . . 183--194
Christoph Hauert and
Franziska Michor and
Martin A. Nowak and
Michael Doebeli Synergy and discounting of cooperation
in social dilemmas . . . . . . . . . . . 195--202
D. G. C. Harper Maynard Smith: Amplifying the reasons
for signal reliability . . . . . . . . . 203--209
William P. Hanage and
Christophe Fraser and
Brian G. Spratt The impact of homologous recombination
on the generation of diversity in
bacteria . . . . . . . . . . . . . . . . 210--219
Noel H. Smith and
Kristin Kremer and
Jacqueline Inwald and
James Dale and
Jeffrey R. Driscoll and
Stephen V. Gordon and
Dick van Soolingen and
R. Glyn Hewinson and
John Maynard Smith Ecotypes of the Mycobacterium
tuberculosis complex . . . . . . . . . . 220--225
Eduardo P. C. Rocha and
John Maynard Smith and
Laurence D. Hurst and
Matthew T. G. Holden and
Jessica E. Cooper and
Noel H. Smith and
Edward J. Feil Comparisons of $ d N / d S $ are time
dependent for closely related bacterial
genomes . . . . . . . . . . . . . . . . 226--235
Eva Jablonka and
Marion J. Lamb The evolution of information in the
major transitions . . . . . . . . . . . 236--246
José F. Fontanari and
Mauro Santos and
Eörs Szathmáry Coexistence and error propagation in
pre-biotic vesicle models: a group
selection approach . . . . . . . . . . . 247--256
Richard E. Michod and
Yannick Viossat and
Cristian A. Solari and
Mathilde Hurand and
Aurora M. Nedelcu Life-history evolution and the origin of
multicellularity . . . . . . . . . . . . 257--272
Ross Cressman and
Josef Hofbauer and
Frank Riedel Stability of the replicator equation for
a single species with a
multi-dimensional continuous trait space 273--288
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Anonymous Special Issue in Memory of John Maynard
Smith . . . . . . . . . . . . . . . . . ??
Darren M. Green and
Istvan Z. Kiss and
Rowland R. Kao Parameterization of individual-based
models: Comparisons with deterministic
mean-field models . . . . . . . . . . . 289--297
G. Carrero and
M. J. Hendzel and
G. de Vries Modelling the compartmentalization of
splicing factors . . . . . . . . . . . . 298--312
J. Millor and
J. M. Amé and
J. Halloy and
J. L. Deneubourg Individual discrimination capability and
collective decision-making . . . . . . . 313--323
Erich Bohl and
Peter Lancaster Implementation of a Markov model for
phylogenetic trees . . . . . . . . . . . 324--333
D. G. Mallet and
L. G. De Pillis A cellular automata model of
tumor-immune system interactions . . . . 334--350
Natalia Komarova Stochastic modeling of drug resistance
in cancer . . . . . . . . . . . . . . . 351--366
Takashi Kunisawa Dichotomy of major bacterial phyla
inferred from gene arrangement
comparisons . . . . . . . . . . . . . . 367--375
Jing'an Cui and
Yasuhiro Takeuchi and
Yasuhisa Saito Spreading disease with transport-related
infection . . . . . . . . . . . . . . . 376--390
Jayanth R. Banavar and
John Damuth and
Amos Maritan and
Andrea Rinaldo Comment on ``Revising the distributive
networks models of West, Brown and
Enquist (1997) and Banavar, Maritan and
Rinaldo (1999): Metabolic inequity of
living tissues provides clues for the
observed allometric scaling rules'' by
Makarieva, Gorshkov and Li . . . . . . . 391--393
Anastassia M. Makarieva and
Victor G. Gorshkov and
Bai-Lian Li Distributive network model of Banavar,
Damuth, Maritan and Rinaldo (2002):
Critique and perspective . . . . . . . . 394--397
Fumihide Shiraishi and
Yuji Hatoh and
Toshinori Irie Corrigendum to ``An efficient method for
calculation of dynamic logarithmic gains
in biochemical systems theory'': [J.
Theor. Biol. \bf 234 (2005) 79--85] . . 398--399
Yongzhen Pei and
Lansun Chen and
Qingrui Zhang and
Changguo Li Corrigendum to ``Extinction and
permanence of one-prey multi-predators
of Holling type II function response
system with impulsive biological
control'': [J. Theor. Biol. \bf 235
(2005) 495--503] . . . . . . . . . . . . 400--400
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Anonymous Pages 289--400 (7 April 2006) . . . . . ??
Leonid Hanin and
Ollivier Hyrien and
Joel Bedford and
Andrei Yakovlev A comprehensive stochastic model of
irradiated cell populations in culture 401--416
Michael A. Gilchrist and
Andreas Wagner A model of protein translation including
codon bias, nonsense errors, and
ribosome recycling . . . . . . . . . . . 417--434
Hisashi Ohtsuki and
Yoh Iwasa The leading eight: Social norms that can
maintain cooperation by indirect
reciprocity . . . . . . . . . . . . . . 435--444
Lina María Ruiz and
Gemma Armengol and
Edwin Habeych and
Sergio Orduz A theoretical analysis of codon
adaptation index of the Boophilus
microplus bm86 gene directed to the
optimization of a DNA vaccine . . . . . 445--449
Satoshi Kanazawa Violent men have more sons: Further
evidence for the generalized
Trivers--Willard hypothesis (gTWH) . . . 450--459
Daniel T. Blumstein and
Avi Bitton and
Jose DaVeiga How does the presence of predators
influence the persistence of
antipredator behavior? . . . . . . . . . 460--468
Dashun Xu and
Zhilan Feng and
Linda J. S. Allen and
Robert K. Swihart A spatially structured metapopulation
model with patch dynamics . . . . . . . 469--481
Jirí Wackermann and
Werner Ehm The dual klepsydra model of internal
time representation and time
reproduction . . . . . . . . . . . . . . 482--493
Yuhong Wang and
Wei Li and
Tongtong Zhang and
Chuanfang Ding and
Zhibin Lu and
Nanye Long and
John P. Rose and
Bi-Cheng Wang and
Dawei Lin Reconstruction of ancient genome and
gene order from complete microbial
genome sequences . . . . . . . . . . . . 494--498
Premananda Indic and
Emery N. Brown Characterizing the amplitude dynamics of
the human core-temperature circadian
rhythm using a stochastic-dynamic model 499--506
Karla Vittori and
Grégoire Talbot and
Jacques Gautrais and
Vincent Fourcassié and
Aluizio F. R. Araújo and
Guy Theraulaz Path efficiency of ant foraging trails
in an artificial network . . . . . . . . 507--515
Chaitanya Athale and
Yuri Mansury and
Thomas S. Deisboeck Corrigendum to ``Simulating the impact
of a molecular `decision-process' on
cellular phenotype and multicellular
patterns in brain tumors'': [J. Theor.
Biol. \bf 233 (2005) 469--481] . . . . . 516--517
M. Gabriela M. Gomes and
Lisa J. White and
Graham F. Medley Erratum to ``The reinfection
threshold'': [J. Theor. Biol. \bf 236
(2005) 111--113] . . . . . . . . . . . . 518--518
Anonymous Author Index . . . . . . . . . . . . . . 519--521
Anonymous Subject Index . . . . . . . . . . . . . 522--526
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Anthony Tongen and
Alain Goriely and
Michael Tabor Biomechanical model for appressorial
design in Magnaporthe grisea . . . . . . 1--8
Hong-Bin Shen and
Jie Yang and
Kuo-Chen Chou Fuzzy KNN for predicting membrane
protein types from pseudo-amino acid
composition . . . . . . . . . . . . . . 9--13
Yoko Sato and
Hiromi Seno A mathematical consideration for the
optimal shell change of hermit crab . . 14--23
Atsushi Yamauchi and
Norio Yamamura Persistence conditions of symmetric
social hybridogenesis in haplo-diploid
hymenoptera . . . . . . . . . . . . . . 24--31
Preeda Meekangvan and
Alan A. Barhorst and
Thomas D. Burton and
Sankar Chatterjee and
Lawrence Schovanec Nonlinear dynamical model and response
of avian cranial kinesis . . . . . . . . 32--47
Armin Rashidi and
Iman Khodarahmi and
Marc D. Feldman Mathematical modeling of the course and
prognosis of factitious disorders: a
game-theoretic approach . . . . . . . . 48--53
Tomás Alarcón and
Radu Marches and
Karen M. Page Mathematical models of the fate of
lymphoma B cells after antigen receptor
ligation with specific antibodies . . . 54--71
Andrea Harnos and
Jen\Ho Reiczigel and
Norbert Solymosi and
Gábor Vattay Analysis of the effect of immunization
in rabies time series . . . . . . . . . 72--77
Kunihiko Kaneko and
Chikara Furusawa An evolutionary relationship between
genetic variation and phenotypic
fluctuation . . . . . . . . . . . . . . 78--86
Xu-Qing Li and
Ping Fan and
Jinghong Fan Polarity and hydrophobicity interactions
in protein synthesis process . . . . . . 87--97
Pietro G. Coen and
Mark Wilks and
Martino Dall'Antonia and
Michael Millar Detection of multiple-strain carriers:
The value of re-sampling . . . . . . . . 98--103
Franziska Matthäus Diffusion versus network models as
descriptions for the spread of prion
diseases in the brain . . . . . . . . . 104--113
Kazuhiko Masaka and
Takenori Takada Floral sex ratio strategy in
wind-pollinated monoecious species
subject to wind-pollination efficiency
and competitive sharing among male
flowers as a game . . . . . . . . . . . 114--125
L. Giuggioli and
G. Abramson and
V. M. Kenkre and
R. R. Parmenter and
T. L. Yates Theory of home range estimation from
displacement measurements of animal
populations . . . . . . . . . . . . . . 126--135
Tomas Godula and
Hana Sevcikova and
John H. Merkin The emergence of wave emitting centres
in an excitable medium . . . . . . . . . 136--148
Joseph L. McClay and
Edwin J. C. G. van den Oord Variance component analysis of
polymorphic metabolic systems . . . . . 149--159
Horacio Ortega Some observations on the article
``Dynamic response of cancer under the
influence of immunological activity and
therapy'' . . . . . . . . . . . . . . . 160--161
Harold P. de Vladar and
Jorge A. González Dynamic response of cancer under the
influence of immunological activity and
therapy . . . . . . . . . . . . . . . . 162--163
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Thomas N. Sherratt Spatial mosaic formation through
frequency-dependent selection in
Müllerian mimicry complexes . . . . . . . 165--174
Xiaojing Yu and
Jianping Cao and
Yudong Cai and
Tieliu Shi and
Yixue Li Predicting rRNA-, RNA-, and DNA-binding
proteins from primary structure with
support vector machines . . . . . . . . 175--184
D. Gurarie and
P. A. Zimmerman and
C. H. King Dynamic regulation of single- and
mixed-species malaria infection:
Insights to specific and non-specific
mechanisms of control . . . . . . . . . 185--199
Zhihua Zhang and
Hong Sun and
Yong Zhang and
Yi Zhao and
Baochen Shi and
Shiwei Sun and
Hongchao Lu and
Dongbo Bu and
Lunjiang Ling and
Runsheng Chen Genome-wide analysis of mammalian DNA
segment fusion/fission . . . . . . . . . 200--208
Juan S. Aranda and
Edgar Salgado and
Alejandro Muñoz-Diosdado Multifractality in intracellular
enzymatic reactions . . . . . . . . . . 209--217
Rasmus Grònfeldt Winther Fisherian and Wrightian perspectives in
evolutionary genetics and model-mediated
imposition of theoretical assumptions 218--232
Steven C. Le Comber and
Barry Nicholls and
D. Kim Rossmo and
Paul A. Racey Geographic profiling and animal foraging 233--240
B. R. Guru Prasad and
Renee M. Borges Searching on patch networks using
correlated random walks: Space usage and
optimal foraging predictions using
Markov chain models . . . . . . . . . . 241--249
S.-H. Lee and
H. K. Pak and
T.-S. Chon Dynamics of prey-flock escaping behavior
in response to predator's attack . . . . 250--259
Victor Sivozhelezov and
Claudio Nicolini Theoretical framework for octopus
rhodopsin crystallization . . . . . . . 260--269
Jens M. Olesen and
Jordi Bascompte and
Yoko L. Dupont and
Pedro Jordano The smallest of all worlds: Pollination
networks . . . . . . . . . . . . . . . . 270--276
Jon F. Wilkins Tissue-specific reactivation of gene
expression at an imprinted locus . . . . 277--287
William F. Pickard Absorption by a moving spherical
organelle in a heterogeneous cytoplasm:
Implications for the role of trafficking
in a symplast . . . . . . . . . . . . . 288--301
Penelope A. Hancock and
E. J. Milner-Gulland and
Matthew J. Keeling Modelling the many-wrongs principle: The
navigational advantages of aggregation
in nomadic foragers . . . . . . . . . . 302--310
B. Hopenfeld A mathematical analysis of the action
potential plateau duration of a human
ventricular myocyte . . . . . . . . . . 311--322
David J. Klinke The ratio of P40 monomer to dimer is an
important determinant of IL-12
bioactivity . . . . . . . . . . . . . . 323--335
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Trevor Dale Protein and nucleic acid together: a
mechanism for the emergence of
biological selection . . . . . . . . . . 337--342
Massimo Di Giulio The non-monophyletic origin of the tRNA
molecule and the origin of genes only
after the evolutionary stage of the last
universal common ancestor (LUCA) . . . . 343--352
Ricard V. Solé and
Josep Sardanyés and
Juana Díez and
Antonio Mas Information catastrophe in RNA viruses
through replication thresholds . . . . . 353--359
Mike Steel and
Jotun Hein Reconstructing pedigrees: a
combinatorial perspective . . . . . . . 360--367
Ales Iglic and
Henry Hägerstrand and
Peter Veranic and
Ana Plemenitas and
Veronika Kralj-Iglic Curvature-induced accumulation of
anisotropic membrane components and raft
formation in cylindrical membrane
protrusions . . . . . . . . . . . . . . 368--373
Jie Yang and
Xian-Chi Dong and
Yao Leng Conformation biases of amino acids based
on tripeptide microenvironment from PDB
database . . . . . . . . . . . . . . . . 374--384
Tobias Merkle and
Martin Rost and
Wolfgang Alt Egocentric path integration models and
their application to desert arthropods 385--399
Lauren Ancel Meyers and
M. E. J. Newman and
Babak Pourbohloul Predicting epidemics on directed contact
networks . . . . . . . . . . . . . . . . 400--418
R. Twarock and
R. W. Hendrix Crosslinking in viral capsids via tiling
theory . . . . . . . . . . . . . . . . . 419--424
Shuichi Matsumura and
Thomas J. Hayden When should signals of submission be
given? --- A game theory model . . . . . 425--433
Andreea Munteanu and
Ricard V. Solé Phenotypic diversity and chaos in a
minimal cell model . . . . . . . . . . . 434--442
Hideki Nakayama and
Hiroto Tanaka and
Toshimitsu Ushio The formulation of the control of an
expression pattern in a gene network by
propositional calculus . . . . . . . . . 443--450
Evelyn Rost and
Ralf Geske and
Michael Baake Signal analysis of impulse response
functions in MR and CT measurements of
cerebral blood flow . . . . . . . . . . 451--458
Caterina Guiot and
Pier Paolo Delsanto and
Alberto Carpinteri and
Nicola Pugno and
Yuri Mansury and
Thomas S. Deisboeck The dynamic evolution of the power
exponent in a universal growth model of
tumors . . . . . . . . . . . . . . . . . 459--463
Joshua Downer and
Joel R. Sevinsky and
Natalie G. Ahn and
Katheryn A. Resing and
M. D. Betterton Incorporating expression data in
metabolic modeling: a case study of
lactate dehydrogenase . . . . . . . . . 464--474
Mayuko Nakamaru and
Yoh Iwasa The coevolution of altruism and
punishment: Role of the selfish punisher 475--488
Heino Hellwig and
Ralph Engelmann and
Oliver Deussen Contact pressure models for spiral
phyllotaxis and their computer
simulation . . . . . . . . . . . . . . . 489--500
Pierre A. Fortier and
Maimouna Bagna Estimating conductances of dual-recorded
neurons within a network of coupled
cells . . . . . . . . . . . . . . . . . 501--510
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Guido Fritzsch and
Martin Schlegel and
Peter F. Stadler Alignments of mitochondrial genome
arrangements: Applications to metazoan
phylogeny . . . . . . . . . . . . . . . 511--520
Franziska Michor and
Martin A. Nowak and
Yoh Iwasa Stochastic dynamics of metastasis
formation . . . . . . . . . . . . . . . 521--530
Andrew R. Joyce and
Keith Easterling and
Stephen G. Holtzman and
Michael J. Kuhar Modeling the onset of drug dependence: a
consideration of the requirement for
protein synthesis . . . . . . . . . . . 531--537
Atul Narang Spontaneous polarization in eukaryotic
gradient sensing: a mathematical model
based on mutual inhibition of frontness
and backness pathways . . . . . . . . . 538--553
Melanie N. Scholz and
Maarten F. Bobbert and
A. J. Knoek van Soest Scaling and jumping: Gravity loses grip
on small jumpers . . . . . . . . . . . . 554--561
Takashi Miura and
Kohei Shiota and
Gillian Morriss-Kay and
Philip K. Maini Mixed-mode pattern in Doublefoot mutant
mouse limb--Turing reaction--diffusion
model on a growing domain during limb
development . . . . . . . . . . . . . . 562--573
Johan F. Galindo and
Clara I. Bermúdez and
Edgar E. Daza tRNA structure from a graph and quantum
theoretical perspective . . . . . . . . 574--582
F. Hayot and
C. Jayaprakash NF-$ \kappa $B oscillations and
cell-to-cell variability . . . . . . . . 583--591
Ning Tan and
Qi Ouyang Design of a network with state stability 592--598
Marie-Aimée Dronne and
Jean-Pierre Boissel and
Emmanuel Grenier A mathematical model of ion movements in
grey matter during a stroke . . . . . . 599--615
Fyodor A. Kondrashov and
Aleksey Y. Ogurtsov and
Alexey S. Kondrashov Selection in favor of nucleotides G and
C diversifies evolution rates and levels
of polymorphism at mammalian synonymous
sites . . . . . . . . . . . . . . . . . 616--626
Christoph Hauert Spatial effects in social dilemmas . . . 627--636
Yehuda G. Assaraf and
Ilan Ifergan and
Wisam N. Kadry and
Ron Y. Pinter Computer modelling of antifolate
inhibition of folate metabolism using
hybrid functional petri nets . . . . . . 637--647
E. Sherer and
R. E. Hannemann and
A. Rundell and
D. Ramkrishna Analysis of resonance chemotherapy in
leukemia treatment via multi-staged
population balance models . . . . . . . 648--661
Xin-Sheng Hu and
Fangliang He Seed and pollen flow in expanding a
species' range . . . . . . . . . . . . . 662--672
Anonymous Author Index . . . . . . . . . . . . . . 673--675
Anonymous Subject Index . . . . . . . . . . . . . 676--683
Anonymous IFC- Editorial board . . . . . . . . . . CO2
Anonymous Pages 511--684 (21 June 2006) . . . . . ??
Alexei A. Romanyukha and
Sergey G. Rudnev and
Igor A. Sidorov Energy cost of infection burden: An
approach to understanding the dynamics
of host-pathogen interactions . . . . . 1--13
Stephen M. Krone and
Yongtao Guan Spatial self-organization in a cyclic
resource-species model . . . . . . . . . 14--25
Martin A. Nowak and
Franziska Michor and
Yoh Iwasa Genetic instability and clonal expansion 26--32
David B. Dusenbery Selection for high gamete encounter
rates explains the evolution of
anisogamy using plausible assumptions
about size relationships of swimming
speed and duration . . . . . . . . . . . 33--38
Cristopher M. Niell Theoretical analysis of a synaptotropic
dendrite growth mechanism . . . . . . . 39--48
R. Ernesto Blanco and
Rodolfo Gambini A biomechanical model for size, speed
and anatomical variations of the
energetic costs of running mammals . . . 49--61
Michael Beil and
Stefanie Eckel and
Frank Fleischer and
Hendrik Schmidt and
Volker Schmidt and
Paul Walther Fitting of random tessellation models to
keratin filament networks . . . . . . . 62--72
Victor Sivozhelezov and
Eugenia Pechkova and
Claudio Nicolini Mapping electrostatic potential of a
protein on its hydrophobic surface:
Implications for crystallization of
Cytochrome P450scc . . . . . . . . . . . 73--80
Robert M. Seymour and
Andrew Pomiankowski ESS gene expression of X-linked
imprinted genes subject to sexual
selection . . . . . . . . . . . . . . . 81--93
James W. Ji and
Nikolaos M. Tsoukias and
Daniel Goldman and
Aleksander S. Popel A computational model of oxygen
transport in skeletal muscle for
sprouting and splitting modes of
angiogenesis . . . . . . . . . . . . . . 94--108
Julien Arino and
Lin Wang and
Gail S. K. Wolkowicz An alternative formulation for a delayed
logistic equation . . . . . . . . . . . 109--119
Ling Yang and
Zhangang Han and
W. Robb MacLellan and
James N. Weiss and
Zhilin Qu Linking cell division to cell growth in
a spatiotemporal model of the cell cycle 120--133
N. J. Burroughs and
Bruno Miguel Paz Mendes de Oliveira and
Alberto Adrego Pinto Regulatory T cell adjustment of quorum
growth thresholds and the control of
local immune responses . . . . . . . . . 134--141
Edwin H. Battley The sources of thermal energy exchange
accompanying microbial catabolism . . . 142--151
Dong Mi and
G. R. Liu and
J.-S. Wang and
Z. R. Li Relationships between the folding rate
constant and the topological parameters
of small two-state proteins based on
general random walk model . . . . . . . 152--157
Heiko Enderling and
Alexander R. A. Anderson and
Mark A. J. Chaplain and
Alastair J. Munro and
Jayant S. Vaidya Mathematical modelling of radiotherapy
strategies for early breast cancer . . . 158--171
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Chun Li and
Nannan Tang and
Jun Wang Directed graphs of DNA sequences and
their numerical characterization . . . . 173--177
Hisako Takigawa-Imamura and
Atsushi Mochizuki Transcriptional autoregulation by
phosphorylated and non-phosphorylated
KaiC in cyanobacterial circadian rhythms 178--192
G. Chowell and
C. E. Ammon and
N. W. Hengartner and
J. M. Hyman Transmission dynamics of the great
influenza pandemic of 1918 in Geneva,
Switzerland: Assessing the effects of
hypothetical interventions . . . . . . . 193--204
Clark Jeffries and
Diana O. Perkins and
Michael Jarstfer Systematic discovery of the grammar of
translational inhibition by RNA hairpins 205--215
Yisroel Brumer and
Franziska Michor and
Eugene I. Shakhnovich Genetic instability and the quasispecies
model . . . . . . . . . . . . . . . . . 216--222
Orkun S. Soyer and
Thomas Pfeiffer and
Sebastian Bonhoeffer Simulating the evolution of signal
transduction pathways . . . . . . . . . 223--232
F. A. C. C. Chalub and
F. C. Santos and
J. M. Pacheco The evolution of norms . . . . . . . . . 233--240
Lo\"\ic Forest and
Fernando Padilla and
Salomé Martínez and
Jacques Demongeot and
Jaime San Martín Modelling of auxin transport affected by
gravity and differential radial growth 241--251
Jason H. Moore and
Joshua C. Gilbert and
Chia-Ti Tsai and
Fu-Tien Chiang and
Todd Holden and
Nate Barney and
Bill C. White A flexible computational framework for
detecting, characterizing, and
interpreting statistical patterns of
epistasis in genetic studies of human
disease susceptibility . . . . . . . . . 252--261
Laszlo Kocsis and
Peter Herman and
Andras Eke Mathematical model for the estimation of
hemodynamic and oxygenation variables by
tissue spectroscopy . . . . . . . . . . 262--275
J. Christian J. Ray and
Denise E. Kirschner Requirement for multiple activation
signals by anti-inflammatory feedback in
macrophages . . . . . . . . . . . . . . 276--294
Carlos Vilas and
Míriam R. García and
Julio R. Banga and
Antonio A. Alonso Stabilization of inhomogeneous patterns
in a diffusion-reaction system under
structural and parametric uncertainties 295--306
Alexandra Agranovich and
Yoram Louzoun and
Nadav Shnerb and
Sasi Moalem Catalyst-induced growth with limited
catalyst lifespan and competition . . . 307--320
Hervé Seligmann and
Neeraja M. Krishnan and
Basuthkar J. Rao Possible multiple origins of replication
in primate mitochondria: Alternative
role of tRNA sequences . . . . . . . . . 321--332
Juan B. Gutierrez and
John L. Teem A model describing the effect of
sex-reversed YY fish in an established
wild population: The use of a Trojan Y
chromosome to cause extinction of an
introduced exotic species . . . . . . . 333--341
Filipa Alves and
Rui Dilão Modeling segmental patterning in
Drosophila: Maternal and gap genes . . . 342--359
Katie Johnson and
Louis F. Rossi A mathematical and experimental study of
ant foraging trail dynamics . . . . . . 360--369
Ulf Dieckmann and
Mikko Heino and
Kalle Parvinen The adaptive dynamics of function-valued
traits . . . . . . . . . . . . . . . . . 370--389
Jiangning Song and
Minglei Wang and
Kevin Burrage Exploring synonymous codon usage
preferences of disulfide-bonded and
non-disulfide bonded cysteines in the
\bionameE. coli genome . . . . . . . . . 390--401
Jean-Baptiste André and
Bernard Godelle Within-host evolution and virulence in
microparasites . . . . . . . . . . . . . 402--409
H. A. Campbell and
J. Z. Klepacki and
S. Egginton A new method in applying power spectral
statistics to examine cardio-respiratory
interactions in fish . . . . . . . . . . 410--419
James N. McNair Probabilistic settling in the Local
Exchange Model of turbulent particle
transport . . . . . . . . . . . . . . . 420--437
Bernat Corominas and
Ricard V. Solé Network topology and self-consistency in
language games . . . . . . . . . . . . . 438--441
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Liane Gabora Self-other organization: Why early life
did not evolve through natural selection 443--450
Wendi Wang and
Yasuhiro Takeuchi and
Yasuhisa Saito and
Shinji Nakaoka Prey-predator system with parental care
for predators . . . . . . . . . . . . . 451--458
Christelle Magal and
Olivier Dangles and
Philippe Caparroy and
Jérôme Casas Hair canopy of cricket sensory system
tuned to predator signals . . . . . . . 459--466
Akihiko Mougi and
Kinya Nishimura Evolution of the maturation rate
collapses competitive coexistence . . . 467--476
A. Nunes and
M. M. Telo da Gama and
M. G. M. Gomes Localized contacts between hosts reduce
pathogen diversity . . . . . . . . . . . 477--487
Hugues Bersini and
Tom Lenaerts and
Francisco C. Santos Growing biological networks: Beyond the
gene-duplication model . . . . . . . . . 488--505
Y. Shastri and
U. Diwekar Sustainable ecosystem management using
optimal control theory: Part 1
(deterministic systems) . . . . . . . . 506--521
Y. Shastri and
U. Diwekar Sustainable ecosystem management using
optimal control theory: Part 2
(stochastic systems) . . . . . . . . . . 522--532
Ken Biegeleisen The probable structure of the
protamine-DNA complex . . . . . . . . . 533--540
Hironori Fujita and
Atsushi Mochizuki Pattern formation of leaf veins by the
positive feedback regulation between
auxin flow and auxin efflux carrier . . 541--551
A. G. Rossberg and
H. Matsuda and
T. Amemiya and
K. Itoh Food webs: Experts consuming families of
experts . . . . . . . . . . . . . . . . 552--563
Steven R. McDougall and
Alexander R. A. Anderson and
Mark A. J. Chaplain Mathematical modelling of dynamic
adaptive tumour-induced angiogenesis:
Clinical implications and therapeutic
targeting strategies . . . . . . . . . . 564--589
Daniel Lawson and
Henrik Jeldtoft Jensen The species-area relationship and
evolution . . . . . . . . . . . . . . . 590--600
P. R. Moorcroft and
S. W. Pacala and
M. A. Lewis Potential role of natural enemies during
tree range expansions following climate
change . . . . . . . . . . . . . . . . . 601--616
J. Srividhya and
M. S. Gopinathan A simple time delay model for eukaryotic
cell cycle . . . . . . . . . . . . . . . 617--627
Efrath Barta and
Alice Maroudas A theoretical study of the distribution
of insulin-like growth factor in human
articular cartilage . . . . . . . . . . 628--638
Peter L. Hurd Resource holding potential, subjective
resource value, and game theoretical
models of aggressiveness signalling . . 639--648
Michail Stamatakis and
Nikos V. Mantzaris Modeling of ATP-mediated signal
transduction and wave propagation in
astrocytic cellular networks . . . . . . 649--668
Koh Hashimoto Unpredictability induced by unfocused
games in evolutionary game dynamics . . 669--675
Franziska Michor and
Yoh Iwasa Dynamics of metastasis suppressor gene
inactivation . . . . . . . . . . . . . . 676--689
Nikos V. Mantzaris Stochastic and deterministic simulations
of heterogeneous cell population
dynamics . . . . . . . . . . . . . . . . 690--706
Anonymous IFC- Editorial board . . . . . . . . . . CO2
Anonymous Pages 443--706 (7 August 2006) . . . . . ??
Andy Gardner and
Alex T. Kalinka Recombination and the evolution of
mutational robustness . . . . . . . . . 707--715
Nils Calander Propensity of a circadian clock to
adjust to the 24h day--night light cycle
and its sensitivity to molecular noise 716--724
Samuel Venner and
Iadine Chad\`es and
Marie-Claude Bel-Venner and
Alain Pasquet and
François Charpillet and
Raymond Leborgne Dynamic optimization over infinite-time
horizon: Web-building strategy in an
orb-weaving spider as a case study . . . 725--733
Daniel I. Bolnick Multi-species outcomes in a common model
of sympatric speciation . . . . . . . . 734--744
Timothy Killingback and
Hendrik J. Blok and
Michael Doebeli Scale-free extinction dynamics in
spatially structured host-parasitoid
systems . . . . . . . . . . . . . . . . 745--750
Ivar Òstby and
Leiv Òyehaug and
Harald B. Steen A stochastic model of cancer initiation
including a bystander effect . . . . . . 751--764
Huijie Yang and
Fangcui Zhao and
Jianzhong Gu and
Binghong Wang Nonlinear modelling approach to human
promoter sequences . . . . . . . . . . . 765--773
Robert Rowthorn The evolution of altruism between
siblings: Hamilton's rule revisited . . 774--790
Emmanuel Tannenbaum and
James L. Sherley and
Eugene I. Shakhnovich Semiconservative quasispecies equations
for polysomic genomes: The haploid case 791--805
Joanne Turner and
Roger G. Bowers and
Michael Begon and
Susan E. Robinson and
Nigel P. French A semi-stochastic model of the
transmission of \bionameEscherichia coli
O157 in a typical UK dairy herd:
Dynamics, sensitivity analysis and
intervention/prevention strategies . . . 806--822
Young-Ho Eom and
Soojin Lee and
Hawoong Jeong Exploring local structural organization
of metabolic networks using subgraph
patterns . . . . . . . . . . . . . . . . 823--829
Dokyun Na and
Dongsup Kim and
Doheon Lee Mathematical modeling of humoral immune
response suppression by passively
administered antibodies in mice . . . . 830--851
Ingo Roeder and
Ingmar Glauche Towards an understanding of lineage
specification in hematopoietic stem
cells: a mathematical model for the
interaction of transcription factors
GATA-1 and PU.1 . . . . . . . . . . . . 852--865
Catherine Q. Howe and
R. Beau Lotto and
Dale Purves Comparison of Bayesian and empirical
ranking approaches to visual perception 866--875
Ian G. Pearce and
Mark A. J. Chaplain and
Peter G. Schofield and
Alexander R. A. Anderson and
Stephen F. Hubbard Modelling the spatio-temporal dynamics
of multi-species host-parasitoid
interactions: Heterogeneous patterns and
ecological implications . . . . . . . . 876--886
D. Waxman Fisher's geometrical model of
evolutionary adaptation-Beyond spherical
geometry . . . . . . . . . . . . . . . . 887--895
J. M. J. Travis and
R. W. Brooker and
E. J. Clark and
C. Dytham The distribution of positive and
negative species interactions across
environmental gradients on a
dual-lattice model . . . . . . . . . . . 896--902
K. Bartha and
H. Rieger Vascular network remodeling via vessel
cooption, regression and growth in
tumors . . . . . . . . . . . . . . . . . 903--918
Zachariah Sinkala Soliton/exciton transport in proteins 919--927
J. J. Bull Optimality models of phage life history
and parallels in disease evolution . . . 928--938
Clara Prats and
Daniel López and
Antoni Giró and
Jordi Ferrer and
Joaquim Valls Individual-based modelling of bacterial
cultures to study the microscopic causes
of the lag phase . . . . . . . . . . . . 939--953
Mojdeh Mohtashemi and
Peter Szolovits and
James Dunyak and
Kenneth D. Mandl A susceptible-infected model of early
detection of respiratory infection
outbreaks on a background of influenza 954--963
Hiroshi Nishiura and
Klaus Dietz and
Martin Eichner The earliest notes on the reproduction
number in relation to herd immunity:
Theophil Lotz and smallpox vaccination 964--967
Anonymous Author Index . . . . . . . . . . . . . . 968--970
Anonymous Subject Index . . . . . . . . . . . . . 971--979
Anonymous IFC- Editorial board . . . . . . . . . . CO2
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Elan Gin and
Vivien Kirk and
James Sneyd A bifurcation analysis of calcium
buffering . . . . . . . . . . . . . . . 1--15
Lu Gaohua and
Tsuyoshi Maekawa and
Hidenori Kimura An integrated model of
thermodynamic-hemodynamic-pharmacokinetic system and its application on decoupling control of intracranial temperature and pressure in brain hypothermia treatment 16--31
M. Broom and
M. P. Speed and
G. D. Ruxton Evolutionarily stable defence and
signalling of that defence . . . . . . . 32--43
D. M. Lewis and
S. I. Bala Plankton predation rates in turbulence:
a study of the limitations imposed on a
predator with a non-spherical field of
sensory perception . . . . . . . . . . . 44--61
M. Kohandel and
S. Sivaloganathan and
A. Oza Mathematical modeling of ovarian cancer
treatments: Sequencing of surgery and
chemotherapy . . . . . . . . . . . . . . 62--68
Hervé Seligmann Error propagation across levels of
organization: From chemical stability of
ribosomal RNA to developmental stability 69--80
D. Fouchet and
S. Marchandeau and
M. Langlais and
D. Pontier Waning of maternal immunity and the
impact of diseases: The example of
myxomatosis in natural rabbit
populations . . . . . . . . . . . . . . 81--89
Stefan Van Dongen Prior specification in Bayesian
statistics: Three cautionary tales . . . 90--100
Grzegorz A. Rempala and
Kenneth S. Ramos and
Ted Kalbfleisch A stochastic model of gene
transcription: An application to L1
retrotransposition events . . . . . . . 101--116
Hao Guo and
Chong Zheng and
Elizabeth R. Gaillard Structure prediction of the RPE65
protein . . . . . . . . . . . . . . . . 117--122
Jack Lee and
Bruce Smaill and
Nicolas Smith Hodgkin--Huxley type ion channel
characterization: An improved method of
voltage clamp experiment parameter
estimation . . . . . . . . . . . . . . . 123--134
Qian-Zhong Li and
Hao Lin The recognition and prediction of $
\sigma 70 $ promoters in
\bionameEscherichia coli K-12 . . . . . 135--141
Y. Liang and
R. M. McMeeking and
A. G. Evans A finite element simulation scheme for
biological muscular hydrostats . . . . . 142--150
P. de Beaudrap and
G. Witten and
G. Biltz and
E. Perrier Mechanistic model of fuel selection in
the muscle . . . . . . . . . . . . . . . 151--163
P. Rämö and
J. Kesseli and
O. Yli-Harja Perturbation avalanches and criticality
in gene regulatory networks . . . . . . 164--170
Mauro Ursino and
Giuseppe-Emiliano La Cara Travelling waves and EEG patterns during
epileptic seizure: Analysis with an
integrate-and-fire neural network . . . 171--187
A. J. Wood and
G. J. Ackland and
T. M. Lenton Mutation of albedo and growth response
produces oscillations in a spatial
Daisyworld . . . . . . . . . . . . . . . 188--198
Jie Yang and
Xian-Chi Dong and
Yao Leng Application of FTTP to alpha-helix or
beta-strand motifs . . . . . . . . . . . 199--219
Angela Reynolds and
Jonathan Rubin and
Gilles Clermont and
Judy Day and
Yoram Vodovotz and
G. Bard Ermentrout A reduced mathematical model of the
acute inflammatory response: I.
Derivation of model and analysis of
anti-inflammation . . . . . . . . . . . 220--236
Judy Day and
Jonathan Rubin and
Yoram Vodovotz and
Carson C. Chow and
Angela Reynolds and
Gilles Clermont A reduced mathematical model of the
acute inflammatory response II.
Capturing scenarios of repeated
endotoxin administration . . . . . . . . 237--256
Massimo Di Giulio Nanoarchaeum equitans is a living fossil 257--260
Christoph Giersch Simple analytical expression for the
extent of transcellular diffusion
gradients. Addendum to ``Stationary
diffusion gradients \ldots'' [J. Theor.
Biol. \bf 224, 385--397 (2003)] . . . . 261--262
Soile V. E. Keränen Erratum to: ``Simulation study on
effects of signaling network structure
on the developmental increase in
complexity'': [J. Theor. Biol. \bf 231
(2004) 3--21] . . . . . . . . . . . . . 263--263
Kazuhiko Masaka and
Takenori Takada Corrigendum to ``Floral sex ratio
strategy in wind-pollinated monoecious
species subject to wind-pollination
efficiency and competitive sharing among
male flowers as a game'': [J. Theor.
Biol. \bf 240 (2006) 114--125] . . . . . 264--264
Anonymous IFC- Editorial board . . . . . . . . . . CO2
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Adriana T. Dawes and
G. Bard Ermentrout and
Eric N. Cytrynbaum and
Leah Edelstein-Keshet Actin filament branching and protrusion
velocity in a simple 1D model of a
motile cell . . . . . . . . . . . . . . 265--279
Jun Nakabayashi and
Akira Sasaki A mathematical model for apoptosome
assembly: The optimal cytochrome c
/Apaf-1 ratio . . . . . . . . . . . . . 280--287
Mostafa Adimy and
Fabien Crauste and
Shigui Ruan Periodic oscillations in leukopoiesis
models with two delays . . . . . . . . . 288--299
Yaroslav R. Nartsissov and
Elena V. Mashkovtseva Application of rigid body mechanics to
theoretical description of rotation
within F$_0$F$_1$-ATP synthase . . . . . 300--308
J. R. C. Piqueira and
F. A. Serboncini and
L. H. A. Monteiro Biological models: Measuring variability
with classical and quantum information 309--313
Naoko Ogawa and
Hiromasa Oku and
Koichi Hashimoto and
Masatoshi Ishikawa A physical model for galvanotaxis of
Paramecium cell . . . . . . . . . . . . 314--328
G. Albano and
V. Giorno A stochastic model in tumor growth . . . 329--336
Ben Adams and
Michael Boots Modelling the relationship between
antibody-dependent enhancement and
immunological distance with application
to dengue . . . . . . . . . . . . . . . 337--346
Yegor A. Voronin and
Igor A. Sidorov and
Vinay K. Pathak A probability model predicting
initiation efficiency of retroviral
vectors with two primer-binding sites 347--355
Anita Shu-Han Lin and
Martin L. Buist and
Nicolas P. Smith and
Andrew J. Pullan Modelling slow wave activity in the
small intestine . . . . . . . . . . . . 356--362
Robert Schlicht and
Yoh Iwasa Direction of regeneration waves in
grid-based models for forest dynamics 363--371
Serge Smidtas and
Vincent Schächter and
François Kép\`es The adaptive filter of the yeast
galactose pathway . . . . . . . . . . . 372--381
Yusen Zhang and
Wei Chen Invariants of DNA sequences based on
2DD-curves . . . . . . . . . . . . . . . 382--388
Berna Sariyar and
Sinem Perk and
Ugur Akman and
Amable Hortaçsu Monte Carlo sampling and principal
component analysis of flux distributions
yield topological and modular
information on metabolic networks . . . 389--400
Boris Veytsman and
Leila Akhmadeyeva Simple mathematical model of pathologic
microsatellite expansions: When
self-reparation does not work . . . . . 401--408
Niko Beerenwinkel and
Nicholas Eriksson and
Bernd Sturmfels Evolution on distributive lattices . . . 409--420
M. G. Van der Linden and
T. G. Rêgo and
D. A. M. Araújo and
S. T. Farias Prediction of potential thermostable
proteins in \bionameXylella fastidiosa 421--425
Hongying Li and
Bong-Rae Kim and
Rongling Wu Identification of quantitative trait
nucleotides that regulate cancer growth:
a simulation approach . . . . . . . . . 426--439
Raja Venkatasubramanian and
Michael A. Henson and
Neil S. Forbes Incorporating energy metabolism into a
growth model of multicellular tumor
spheroids . . . . . . . . . . . . . . . 440--453
Ruiqi Wang and
Luonan Chen and
Kazuyuki Aihara Construction of genetic oscillators with
interlocked feedback networks . . . . . 454--463
Catherine Beauchemin Probing the effects of the well-mixed
assumption on viral infection dynamics 464--477
Gen Kurosawa and
Albert Goldbeter Amplitude of circadian oscillations
entrained by $ 24$-h light-dark cycles 478--488
Atul Narang Comparative analysis of some models of
gene regulation in mixed-substrate
microbial growth . . . . . . . . . . . . 489--501
Revathi Ananthakrishnan and
Jochen Guck and
Falk Wottawah and
Stefan Schinkinger and
Bryan Lincoln and
Maren Romeyke and
Tess Moon and
Josef Käs Quantifying the contribution of actin
networks to the elastic strength of
fibroblasts . . . . . . . . . . . . . . 502--516
Xianning Liu and
Yasuhiro Takeuchi Spread of disease with transport-related
infection and entry screening . . . . . 517--528
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Sergio Castellano and
Paolo Cermelli Reconciling sexual selection to species
recognition: a process-based model of
mating decision . . . . . . . . . . . . 529--538
Alexander B. Medvinsky and
Maria M. Gonik and
Bai-Lian Li and
Vassili V. Velkov and
Horst Malchow Invasion of pests resistant to Bt toxins
can lead to inherent non-uniqueness in
genetically modified Bt-plant dynamics:
Mathematical modeling . . . . . . . . . 539--546
Bradford E. Peercy and
Steven J. Cox and
Sagit Shalel-Levanon and
Ka-Yiu San and
George Bennett A kinetic model of oxygen regulation of
cytochrome production in
\bionameEscherichia coli . . . . . . . . 547--563
Kazuyuki Takai Classification of the possible pairs
between the first anticodon and the
third codon positions based on a simple
model assuming two geometries with which
the pairing effectively potentiates the
decoding complex . . . . . . . . . . . . 564--580
Adam D. Sylvester Locomotor decoupling and the origin of
hominin bipedalism . . . . . . . . . . . 581--590
Frédéric Gosselin An assessment of the dependence of
evenness indices on species richness . . 591--597
Meredith L. Greer and
Laurent Pujo-Menjouet and
Glenn F. Webb A mathematical analysis of the dynamics
of prion proliferation . . . . . . . . . 598--606
Zhaochun Yang and
Jeen-Shang Lin and
Jianxin Chen and
James H-C. Wang Determining substrate displacement and
cell traction fields --- a new approach 607--616
Alexey V. Melkikh and
Vladimir D. Seleznev Model of active transport of ions in
biomembranes based on ATP-dependent
change of height of diffusion barriers
to ions . . . . . . . . . . . . . . . . 617--626
Ernst G. Malygin and
Stanley Hattman A probabilistic approach to compact
steady-state kinetic equations for
enzymic reactions . . . . . . . . . . . 627--633
Rowland R. Kao Evolution of pathogens towards low $ R_0
$ in heterogeneous populations . . . . . 634--642
Jon F. Wilkins Competitive signal discrimination,
methylation reprogramming and genomic
imprinting . . . . . . . . . . . . . . . 643--651
Jan Karbowski and
Christopher J. Cronin and
Adeline Seah and
Jane E. Mendel and
Daniel Cleary and
Paul W. Sternberg Conservation rules, their breakdown, and
optimality in Caenorhabditis sinusoidal
locomotion . . . . . . . . . . . . . . . 652--669
K. A. Jane White and
C. A. Gilligan The role of initial inoculum on epidemic
dynamics . . . . . . . . . . . . . . . . 670--682
Xinyu Song and
Zhongyi Xiang The prey-dependent consumption two-prey
one-predator models with stage structure
for the predator and impulsive effects 683--698
Mike Mesterton-Gibbons and
Ian C. W. Hardy and
Jeremy Field The effect of differential survivorship
on the stability of reproductive
queueing . . . . . . . . . . . . . . . . 699--712
T. Keef and
C. Micheletti and
R. Twarock Master equation approach to the assembly
of viral capsids . . . . . . . . . . . . 713--721
Jiaxu Li and
Yang Kuang and
Clinton C. Mason Modeling the glucose-insulin regulatory
system and ultradian insulin secretory
oscillations with two explicit time
delays . . . . . . . . . . . . . . . . . 722--735
Kei-ichi Tainaka and
Jin Yoshimura and
Takashi Ushimaru Stage-dependent density effect in the
cell cycle of budding yeast . . . . . . 736--742
R. Varón and
M. Garc\'ìa-Moreno and
D. Valera-Ruipérez and
F. Garc\'ìa-Molina and
F. Garc\'ìa-Cánovas and
R. G. Ladrón-de Guevara and
J. Masiá-Pérez and
B. H. Havsteen Kinetic analysis of a general model of
activation of aspartic proteinase
zymogens . . . . . . . . . . . . . . . . 743--754
K. Prévost and
P. Magal and
C. Beaumont A model of Salmonella infection within
industrial house hens . . . . . . . . . 755--763
Troy Shinbrot Simulated morphogenesis of developmental
folds due to proliferative pressure . . 764--773
Dawn Walker and
Steven Wood and
Jennifer Southgate and
Mike Holcombe and
Rodney Smallwood An integrated agent-mathematical model
of the effect of intercellular
signalling via the epidermal growth
factor receptor on cell proliferation 774--789
Matthijs van Veelen Why kin and group selection models may
not be enough to explain human
other-regarding behaviour . . . . . . . 790--797
Rui Gardner and
Pedro Moradas-Ferreira and
Armindo Salvador Why does superoxide dismutase
overexpression often increase hydrogen
peroxide concentrations? An alternative
explanation . . . . . . . . . . . . . . 798--800
Anonymous IFC- Editorial board . . . . . . . . . . CO2
Anonymous Pages 529--800 (7 October 2006) . . . . ??
M. Saleet Jafri and
Malgorzata Kotulska Modeling the mechanism of metabolic
oscillations in ischemic cardiac
myocytes . . . . . . . . . . . . . . . . 801--817
Bart De Vylder and
Karl Tuyls How to reach linguistic consensus: a
proof of convergence for the naming game 818--831
Richard A. Boyle and
Timothy M. Lenton Fluctuation in the physical environment
as a mechanism for reinforcing
evolutionary transitions . . . . . . . . 832--843
Sebastian J. Schreiber Persistence despite perturbations for
interacting populations . . . . . . . . 844--852
Enrico Grazi and
Cristina Di Bona Viscosity as an inseparable partner of
muscle contraction . . . . . . . . . . . 853--861
Dirk Hartmann and
Takashi Miura Modelling in vitro lung branching
morphogenesis during development . . . . 862--872
Michael A. Fishman Involuntary defection and the
evolutionary origins of empathy . . . . 873--879
John W. Lorimer Curved paths in raptor flight:
Deterministic models . . . . . . . . . . 880--889
Laura B. Sontag and
Matthew C. Lorincz and
E. Georg Luebeck Dynamics, stability and inheritance of
somatic DNA methylation imprints . . . . 890--899
Jonathan M. Jeschke Density-dependent effects of prey
defenses and predator offenses . . . . . 900--907
Hongyun Wang Motor potential profile and a robust
method for extracting it from time
series of motor positions . . . . . . . 908--921
V. R. Chechetkin Genetic code from tRNA point of view . . 922--934
Da-Yong Zhang and
Xin-Hua Jiang Interactive effects of habitat
productivity and herbivore pressure on
the evolution of anti-herbivore defense
in invasive plant populations . . . . . 935--940
Shuang-Quan Wang and
Jie Yang and
Kuo-Chen Chou Using stacked generalization to predict
membrane protein types based on
pseudo-amino acid composition . . . . . 941--946
Nadia Lalam Estimation of the reaction efficiency in
polymerase chain reaction . . . . . . . 947--953
António F. Miguel Constructal pattern formation in stony
corals, bacterial colonies and plant
roots under different hydrodynamics
conditions . . . . . . . . . . . . . . . 954--961
Anonymous Author Index . . . . . . . . . . . . . . 962--965
Anonymous Subject Index . . . . . . . . . . . . . 966--975
Anonymous IFC- Editorial board . . . . . . . . . . CO2
Anonymous Pages 801--976 (21 October 2006) . . . . ??
Thomas Cordonnier and
Beno\^\it Courbaud and
Alain Franc The effect of colonization and
competition processes on the relation
between disturbance and diversity in
plant communities . . . . . . . . . . . 1--12
James E. McGraw and
John F. Y. Brookfield The interaction between mobile DNAs and
their hosts in a fluctuating environment 13--23
Piotr H. Pawlowski and
Beata Burzy\'nska and
Piotr Zielenkiewicz Theoretical model of reticulocyte to
erythrocyte shape transformation . . . . 24--38
Fumihiko Takeuchi and
Kenji Yamamoto Effectiveness of realistic vaccination
strategies for contact networks of
various degree distributions . . . . . . 39--47
M. Schargott and
V. L. Popov and
S. Gorb Spring model of biological attachment
pads . . . . . . . . . . . . . . . . . . 48--53
Philip John Livingstone Bell Sex and the eukaryotic cell cycle is
consistent with a viral ancestry for the
eukaryotic nucleus . . . . . . . . . . . 54--63
Naoki Masuda and
Norio Konno Multi-state epidemic processes on
complex networks . . . . . . . . . . . . 64--75
Xin-Sheng Hu and
Bailian Li Additive genetic variation and the
distribution of QTN effects among sites 76--85
Hisashi Ohtsuki and
Martin A. Nowak The replicator equation on graphs . . . 86--97
Nicola J. Armstrong and
Kevin J. Painter and
Jonathan A. Sherratt A continuum approach to modelling
cell-cell adhesion . . . . . . . . . . . 98--113
Darin R. Rokyta and
Craig J. Beisel and
Paul Joyce Properties of adaptive walks on
uncorrelated landscapes under strong
selection and weak mutation . . . . . . 114--120
Priyanga Amarasekare Productivity, dispersal and the
coexistence of intraguild predators and
prey . . . . . . . . . . . . . . . . . . 121--133
Marco A. Janssen and
Robert L. Goldstone Dynamic-persistence of cooperation in
public good games when group size is
dynamic . . . . . . . . . . . . . . . . 134--142
Isao Kawaguchi and
Masahiro Doi and
Shizuko Kakinuma and
Yoshiya Shimada Combined effect of multiple carcinogens
and synergy index . . . . . . . . . . . 143--151
Alexandra V. Pokhilko and
Fazoil I. Ataullakhanov and
Ekhson L. Holmuhamedov Mathematical model of mitochondrial
ionic homeostasis: Three modes of
Ca$^{2+}$ transport . . . . . . . . . . 152--169
Anonymous Editorial Board . . . . . . . . . . . . CO2
Anonymous Pages 1--170 (7 November 2006) . . . . . ??
A. Brú and
D. Casero The effect of pressure on the growth of
tumour cell colonies . . . . . . . . . . 171--180
Robert Forster and
Christoph Adami and
Claus O. Wilke Selection for mutational robustness in
finite populations . . . . . . . . . . . 181--190
Jane M. Heffernan and
Lindi M. Wahl Natural variation in HIV infection:
Monte Carlo estimates that include CD8
effector cells . . . . . . . . . . . . . 191--204
Ken T. D. Eames Partnership dynamics and strain
competition . . . . . . . . . . . . . . 205--213
Bing-Liang Xu and
Yi Tao External noise and feedback regulation:
Steady-state statistics of
auto-regulatory genetic network . . . . 214--221
P. I. Ndiaye and
D. J. Bicout and
B. Mondet and
P. Sabatier Rainfall triggered dynamics of Aedes
mosquito aggressiveness . . . . . . . . 222--229
D. J. Hodgson and
D. J. Hosken Sperm competition promotes the
exploitation of rival ejaculates . . . . 230--234
François G. Feugier and
Yoh Iwasa How canalization can make loops: a new
model of reticulated leaf vascular
pattern formation . . . . . . . . . . . 235--244
Christine Taylor and
Yoh Iwasa and
Martin A. Nowak A symmetry of fixation times in
evoultionary dynamics . . . . . . . . . 245--251
Sukanta Mondal and
Rajasekaran Bhavna and
Rajasekaran Mohan Babu and
Suryanarayanarao Ramakumar Pseudo amino acid composition and
multi-class support vector machines
approach for conotoxin superfamily
classification . . . . . . . . . . . . . 252--260
A. G. Rossberg and
K. Yanagi and
T. Amemiya and
K. Itoh Estimating trophic link density from
quantitative but incomplete diet data 261--272
Wei-min Liu and
Rui Li and
James Z. Sun and
Jing Wang and
Julie Tsai and
Wei Wen and
Alexander Kohlmann and
P. Mickey Williams PQN and DQN: Algorithms for expression
microarrays . . . . . . . . . . . . . . 273--278
Michael Baake and
Uwe Grimm and
Robert Giegerich Surprises in approximating Levenshtein
distances . . . . . . . . . . . . . . . 279--282
Annikki Mäkelä and
Harry T. Valentine The quarter-power scaling model does not
imply size-invariant hydraulic
resistance in plants . . . . . . . . . . 283--285
Anonymous Editorial Board . . . . . . . . . . . . CO2
Anonymous Pages 171--286 (21 November 2006) . . . ??
Jérôme Buhl and
Jacques Gautrais and
Jean Louis Deneubourg and
Pascale Kuntz and
Guy Theraulaz The growth and form of tunnelling
networks in ants . . . . . . . . . . . . 287--298
Daniel Lawson and
Henrik Jeldtoft Jensen and
Kunihiko Kaneko Diversity as a product of inter-specific
interactions . . . . . . . . . . . . . . 299--307
Wolfgang Pluhar AT2--AT3-profiling: a new look at
synonymous codon usage . . . . . . . . . 308--321
Jun Qian and
Ping Xie and
Shuo-Xing Dou and
Peng-Ye Wang A model for biased diffusion of
collagenase along collagen fibrils . . . 322--327
Mark W. Ruszczycky and
Vernon E. Anderson Interpretation of V/K isotope effects
for enzymatic reactions exhibiting
multiple isotopically sensitive steps 328--342
Matthew J. Simpson and
Kerry A. Landman and
Barry D. Hughes and
Donald F. Newgreen Looking inside an invasion wave of cells
using continuum models: Proliferation is
the key . . . . . . . . . . . . . . . . 343--360
Yutaka Kobayashi and
Norio Yamamura and
Maurice W. Sabelis Evolution of talking plants in a
tritrophic context: Conditions for
uninfested plants to attract predators
prior to herbivore attack . . . . . . . 361--374
Hervé Seligmann and
Neeraja M. Krishnan and
Basuthkar J. Rao Mitochondrial tRNA sequences as unusual
replication origins: Pathogenic
implications for Homo sapiens . . . . . 375--385
Laureano Castro and
Miguel A. Toro Assortative mating through a mechanism
of sexual selection . . . . . . . . . . 386--392
William R. Taylor A molecular model for the origin of
protein translation in an RNA world . . 393--406
Leonid Hanin and
Jason Rose and
Marco Zaider A stochastic model for the sizes of
detectable metastases . . . . . . . . . 407--417
Nobuyuki Takahashi and
Rie Mashima The importance of subjectivity in
perceptual errors on the emergence of
indirect reciprocity . . . . . . . . . . 418--436
Jorge M. Pacheco and
Arne Traulsen and
Martin A. Nowak Active linking in evolutionary games . . 437--443
Chao Chen and
Yuan-Xin Tian and
Xiao-Yong Zou and
Pei-Xiang Cai and
Jin-Yuan Mo Using pseudo-amino acid composition and
support vector machine to predict
protein structural class . . . . . . . . 444--448
Folmer Bokma Artificial neural networks can learn to
estimate extinction rates from molecular
phylogenies . . . . . . . . . . . . . . 449--454
Anonymous Editorial Board . . . . . . . . . . . . CO2
Anonymous Pages 287--454 (7 December 2006) . . . . ??
Lloyd Demetrius The origin of allometric scaling laws in
biology . . . . . . . . . . . . . . . . 455--467
Josep Sardanyés and
Ricard V. Solé Bifurcations and phase transitions in
spatially extended two-member
hypercycles . . . . . . . . . . . . . . 468--482
H. Arthur Woods and
Roger T. Bonnecaze Insect eggs at a transition between
diffusion and reaction limitation:
Temperature, oxygen, and water . . . . . 483--492
S.-H. Lee and
P. Bardunias and
N.-Y. Su Food encounter rates of simulated
termite tunnels with variable food
size/distribution pattern and tunnel
branch length . . . . . . . . . . . . . 493--500
Murad Banaji A generic model of electron transport in
mitochondria . . . . . . . . . . . . . . 501--516
Jana L. Gevertz and
Salvatore Torquato Modeling the effects of vasculature
evolution on early brain tumor growth 517--531
B. Ribba and
O. Saut and
T. Colin and
D. Bresch and
E. Grenier and
J. P. Boissel A multiscale mathematical model of
avascular tumor growth to investigate
the therapeutic benefit of anti-invasive
agents . . . . . . . . . . . . . . . . . 532--541
Bert J. Lao and
Daniel T. Kamei A compartmental model of iron regulation
in the mouse . . . . . . . . . . . . . . 542--554
Xiao Qing Liu and
Qi Dai and
Zhilong Xiu and
Tianming Wang PNN-curve: a new 2D graphical
representation of DNA sequences and its
application . . . . . . . . . . . . . . 555--561
Xinzhu Meng and
Lansun Chen Almost periodic solution of
non-autonomous Lotka--Volterra
predator-prey dispersal system with
delays . . . . . . . . . . . . . . . . . 562--574
Richard Bertram and
Morten Gram Pedersen and
Dan S. Luciani and
Arthur Sherman A simplified model for mitochondrial ATP
production . . . . . . . . . . . . . . . 575--586
Samuel M. Flaxman and
H. Kern Reeve Putting competition strategies into
ideal free distribution models: Habitat
selection as a tug of war . . . . . . . 587--593
Isao Kawaguchi and
Akira Sasaki The wave speed of intergradation zone in
two-species lattice Müllerian mimicry
model . . . . . . . . . . . . . . . . . 594--603
Claire Gaillard and
François Strauss DNA topology and genome organization in
higher eukaryotes: a model . . . . . . . 604--607
Anonymous Author Index . . . . . . . . . . . . . . 608--610
Anonymous Subject Index . . . . . . . . . . . . . 611--616
Anonymous Editorial Board . . . . . . . . . . . . CO2
Anonymous Pages 455--616 (21 December 2006) . . . ??
Huiying Wu and
P. A. Robinson Modeling and investigation of neural
activity in the thalamus . . . . . . . . 1--14
John G. Skedros and
Sidney L. Baucom Mathematical analysis of trabecular
`trajectories' in apparent trajectorial
structures: The unfortunate historical
emphasis on the human proximal femur . . 15--45
Hiroyuki Yokomizo and
Patsy Haccou and
Yoh Iwasa Optimal conservation strategy in
fluctuating environments with species
interactions: Resource-enhancement of
the native species versus extermination
of the alien species . . . . . . . . . . 46--58
William E. Cooper and
William G. Frederick Optimal flight initiation distance . . . 59--67
Vijay Chickarmane and
Boris N. Kholodenko and
Herbert M. Sauro Oscillatory dynamics arising from
competitive inhibition and multisite
phosphorylation . . . . . . . . . . . . 68--76
Zakharia M. Frenkel and
Edward N. Trifonov Walking through protein sequence space 77--80
Christian Bottomley and
Valerie Isham and
Maria-Gloria Basáñez Population biology of multispecies
helminth infection: Competition and
coexistence . . . . . . . . . . . . . . 81--95
Le Zhang and
Chaitanya A. Athale and
Thomas S. Deisboeck Development of a three-dimensional
multiscale agent-based tumor model:
Simulating gene-protein interaction
profiles, cell phenotypes and
multicellular patterns in brain cancer 96--107
A. Ehrenfeucht and
D. M. Prescott and
G. Rozenberg A model for the origin of internal
eliminated segments (IESs) and gene
rearrangement in stichotrichous ciliates 108--114
Yuehua Cui A statistical framework for genome-wide
scanning and testing of imprinted
quantitative trait loci . . . . . . . . 115--126
Sayed-Amir Marashi and
Reza Behrouzi and
Hamid Pezeshk Adaptation of proteins to different
environments: a comparison of proteome
structural properties in Bacillus
subtilis and \bionameEscherichia coli 127--132
Satoshi Kanazawa Beautiful parents have more daughters: a
further implication of the generalized
Trivers--Willard hypothesis (gTWH) . . . 133--140
Anh-Tuan Dinh and
Theo Theofanous and
Samir Mitragotri Modeling of pattern regulation in
melanophores . . . . . . . . . . . . . . 141--153
Ivan V. Surovstev and
Jeffrey J. Morgan and
Paul A. Lindahl Whole-cell modeling framework in which
biochemical dynamics impact aspects of
cellular geometry . . . . . . . . . . . 154--166
George S. Bakken A critique of thermal modeling of snake
infrared reception by Jones, Lynn and
Stone (2001) . . . . . . . . . . . . . . 167--168
Anonymous Editorial Board . . . . . . . . . . . . CO2
Anonymous Pages 1--168 (7 January 2007) . . . . . ??
Huseyin Coskun and
Yi Li and
Michael A. Mackey Ameboid cell motility: a model and
inverse problem, with an application to
live cell imaging data . . . . . . . . . 169--179
N. Jafarnia-Dabanloo and
D. C. McLernon and
H. Zhang and
A. Ayatollahi and
V. Johari-Majd A modified Zeeman model for producing
HRV signals and its application to ECG
signal generation . . . . . . . . . . . 180--189
Saikat Chakraborty and
Vemuri Balakotaiah and
Akhil Bidani Multiscale model for pulmonary oxygen
uptake and its application to quantify
hypoxemia in hepatopulmonary syndrome 190--207
Ben Clark and
Seth Bullock Shedding light on plant competition:
Modelling the influence of plant
morphology on light capture (and vice
versa) . . . . . . . . . . . . . . . . . 208--217
A. Sinkkonen Modelling the effect of autotoxicity on
density-dependent phytotoxicity . . . . 218--227
Paul Mullowney and
Alex James The role of variance in capped-rate
stochastic growth models with external
mortality . . . . . . . . . . . . . . . 228--238
Jacques-A. Sepulchre and
Sylvie Reverchon and
William Nasser Modeling the onset of virulence in a
pectinolytic bacterium . . . . . . . . . 239--257
Nigel Aylward and
N. Bofinger Intramolecular interactions in aminoacyl
cyclic-3',5'-nucleotides . . . . . . . . 258--274
Samad Jahandideh and
Parviz Abdolmaleki and
Mina Jahandideh and
Sayyed Hamed Sadat Hayatshahi Novel hybrid method for the evaluation
of parameters contributing in
determination of protein structural
classes . . . . . . . . . . . . . . . . 275--281
Laurent Lehmann and
Lukas F. Keller and
Hanna Kokko Mate choice evolution, dominance
effects, and the maintenance of genetic
variation . . . . . . . . . . . . . . . 282--295
Ernesto Estrada Food webs robustness to biodiversity
loss: The roles of connectance,
expansibility and degree distribution 296--307
Steinar Engen and
Russell Lande and
Bernt-Erik Sæther and
Marco Festa-Bianchet Using reproductive value to estimate key
parameters in density-independent
age-structured populations . . . . . . . 308--317
József Gál and
Taeko Miyazaki and
Victor Benno Meyer-Rochow Computational determination of
refractive index distribution in the
crystalline cones of the compound eye of
Antarctic krill (\bionameEuphausia
superba) . . . . . . . . . . . . . . . . 318--325
Atul Narang and
Sergei S. Pilyugin Bacterial gene regulation in diauxic and
non-diauxic growth . . . . . . . . . . . 326--348
Arne Traulsen and
Martin A. Nowak and
Jorge M. Pacheco Stochastic payoff evaluation increases
the temperature of selection . . . . . . 349--356
Hiroshi Nishiura and
Hisashi Inaba Discussion: Emergence of the concept of
the basic reproduction number from
mathematical demography . . . . . . . . 357--364
Anonymous Editorial Board . . . . . . . . . . . . CO2
Anonymous Pages 169--364 (21 January 2007) . . . . ??
Marek Kimmel Ovide Arino, a personal memory . . . . . 365--366
Alberto d'Onofrio and
Ian P. M. Tomlinson A nonlinear mathematical model of cell
turnover, differentiation and
tumorigenesis in the intestinal crypt 367--374
Anna Marciniak-Czochra and
Marek Kimmel Reaction-diffusion approach to modeling
of the spread of early tumors along
linear or tubular structures . . . . . . 375--387
A. Bertuzzi and
A. Fasano and
A. Gandolfi and
C. Sinisgalli Cell resensitization after delivery of a
cycle-specific anticancer drug and
effect of dose splitting: Learning from
tumour cords . . . . . . . . . . . . . . 388--399
Janet Dyson and
Eva Sánchez and
Rosanna Villella-Bressan and
Glenn F. Webb Stabilization of telomeres in nonlinear
models of proliferating cell lines . . . 400--408
Dirk Hartmann Limit behaviour of spatially growing
cell cultures . . . . . . . . . . . . . 409--415
Giovanni Santangelo and
Lorenzo Bramanti and
Mimmo Iannelli Population dynamics and conservation
biology of the over-exploited
Mediterranean red coral . . . . . . . . 416--423
Carlos A. Braumann Harvesting in a random environment: Itô
or Stratonovich calculus? . . . . . . . 424--432
Tanya Y. Berger-Wolf and
Cristopher Moore and
Jared Saia A computational approach to animal
breeding . . . . . . . . . . . . . . . . 433--439
Miguel A. Zavala and
Óscar Angulo and
Rafael Bravo de la Parra and
Juan C. López-Marcos An analytical model of stand dynamics as
a function of tree growth, mortality and
recruitment: The shade tolerance-stand
structure hypothesis revisited . . . . . 440--450
G. M. Kepler and
H. K. Nguyen and
J. Webster-Cyriaque and
H. T. Banks A dynamic model for induced reactivation
of latent virus . . . . . . . . . . . . 451--462
Simone Gupta and
Siddharth S. Bisht and
Ritushree Kukreti and
Sanjeev Jain and
Samir K. Brahmachari Boolean network analysis of a
neurotransmitter signaling pathway . . . 463--469
Francis L. W. Ratnieks and
Heikki Helanterä and
Kevin R. Foster Are mistakes inevitable? Sex allocation
specialization by workers can reduce the
genetic information needed to assess
queen mating frequency . . . . . . . . . 470--477
Gilles Gnacadja and
Alex Shoshitaishvili and
Michael J. Gresser and
Brian Varnum and
David Balaban and
Mark Durst and
Chris Vezina and
Yu Li Monotonicity of interleukin-1
receptor-ligand binding with respect to
antagonist in the presence of decoy
receptor . . . . . . . . . . . . . . . . 478--488
M. A. Murado and
J. A. Vázquez The notion of hormesis and the
dose-response theory: a unified approach 489--499
Jeffrey D. Gross and
I. Constantinidis and
A. Sambanis Modeling of encapsulated cell systems 500--510
George T. Yates and
Thomas Smotzer On the lag phase and initial decline of
microbial growth curves . . . . . . . . 511--517
Hisashi Ohtsuki and
Yoh Iwasa Global analyses of evolutionary dynamics
and exhaustive search for social norms
that maintain cooperation by reputation 518--531
Yanni Xiao and
Nigel P. French and
Roger G. Bowers and
Damian Clancy Pair approximations and the inclusion of
indirect transmission: Theory and
application to between farm transmission
of Salmonella . . . . . . . . . . . . . 532--540
Dominique Chu and
Ian C. Blomfield Orientational control is an efficient
control mechanism for phase switching in
the \bionameE. coli fim system . . . . . 541--551
Anonymous Editorial Board . . . . . . . . . . . . CO2
Anonymous Pages 365--552 (7 February 2007) . . . . ??
Atsushi Tero and
Ryo Kobayashi and
Toshiyuki Nakagaki A mathematical model for adaptive
transport network in path finding by
true slime mold . . . . . . . . . . . . 553--564
Ronald Petie and
Mees Muller Curvature facilitates prey fixation in
predatory insect claws . . . . . . . . . 565--575
Caroline Tolla and
Sebastiaan A. L. M. Kooijman and
Jean-Christophe Poggiale A kinetic inhibition mechanism for
maintenance . . . . . . . . . . . . . . 576--587
Masashi Kamo and
Akira Sasaki and
Mike Boots The role of trade-off shapes in the
evolution of parasites in spatial host
populations: An approximate analytical
approach . . . . . . . . . . . . . . . . 588--596
Andreas Fritsch and
Christian Hellmich `Universal' microstructural patterns in
cortical and trabecular, extracellular
and extravascular bone materials:
Micromechanics-based prediction of
anisotropic elasticity . . . . . . . . . 597--620
Carole Knibbe and
Olivier Mazet and
Fabien Chaudier and
Jean-Michel Fayard and
Guillaume Beslon Evolutionary coupling between the
deleteriousness of gene mutations and
the amount of non-coding sequences . . . 621--630
Daniel W. Franks and
Thomas N. Sherratt The evolution of multicomponent mimicry 631--639
Qiming Lv and
Jonathan W. Pitchford Stochastic von Bertalanffy models, with
applications to fish recruitment . . . . 640--655
Michael E. Meyer-Hermann Are T cells at the origin of B cell
lymphomas? . . . . . . . . . . . . . . . 656--669
Tatsuya Akutsu and
Morihiro Hayashida and
Wai-Ki Ching and
Michael K. Ng Control of Boolean networks: Hardness
results and algorithms for tree
structured networks . . . . . . . . . . 670--679
E. Gilad and
J. von Hardenberg and
A. Provenzale and
M. Shachak and
E. Meron A mathematical model of plants as
ecosystem engineers . . . . . . . . . . 680--691
Huachun Wei and
Rui Zhang and
Chunfang Wang and
Huiqin Zheng and
Aixiu Li and
Kuo-Chen Chou and
Dong-Qing Wei Molecular insights of SAH enzyme
catalysis and implication for inhibitor
design . . . . . . . . . . . . . . . . . 692--702
Kieran Smallbone and
Robert A. Gatenby and
Robert J. Gillies and
Philip K. Maini and
David J. Gavaghan Metabolic changes during carcinogenesis:
Potential impact on invasiveness . . . . 703--713
Marco Archetti Autumn colours and the nutrient
retranslocation hypothesis: a
theoretical assessment . . . . . . . . . 714--721
Mendeli H. Vainstein and
Ana T. C. Silva and
Jeferson J. Arenzon Does mobility decrease cooperation? . . 722--728
Ying-Hen Hsieh and
Chwan-Chuan King and
Cathy W. S. Chen and
Mei-Shang Ho and
Sze-Bi Hsu and
Yi-Chun Wu Impact of quarantine on the 2003 SARS
outbreak: a retrospective modeling study 729--736
Noorossadat Torabi and
Hani Goodarzi and
Hamed Shateri Najafabadi The case for an error minimizing set of
coding amino acids . . . . . . . . . . . 737--744
Anonymous Author Index . . . . . . . . . . . . . . 745--747
Anonymous Subject Index . . . . . . . . . . . . . 748--754
Anonymous Editorial Board . . . . . . . . . . . . CO2
Anonymous Pages 553--754 (21 February 2007) . . . ??
Ryan Zurakowski and
Dominik Wodarz Model-driven approaches for in vitro
combination therapy using ONYX-015
replicating oncolytic adenovirus . . . . 1--8
Daniel A. Vasco and
Helen J. Wearing and
Pejman Rohani Tracking the dynamics of pathogen
interactions: Modeling ecological and
immune-mediated processes in a
two-pathogen single-host system . . . . 9--25
Jeffrey A. Fletcher and
Martin Zwick The evolution of altruism: Game theory
in multilevel selection and inclusive
fitness . . . . . . . . . . . . . . . . 26--36
Emmanuel Tannenbaum Extracting viability landscapes from
mutagen-response experiments . . . . . . 37--43
Renata Ivanek and
Yrjö T. Gröhn and
Alphina Jui-Jung Ho and
Martin Wiedmann Markov chain approach to analyze the
dynamics of pathogen fecal shedding ---
Example of \bionameListeria
monocytogenes shedding in a herd of
dairy cattle . . . . . . . . . . . . . . 44--58
Rob W. Brooker and
Justin M. J. Travis and
Ewen J. Clark and
Calvin Dytham Modelling species' range shifts in a
changing climate: The impacts of biotic
interactions, dispersal distance and the
rate of climate change . . . . . . . . . 59--65
Ximin Lin and
James S. Koopman and
Stephen E. Chick Mathematical model comparisons of
potential non-typeable Haemophilus
influenzae vaccine effects . . . . . . . 66--76
Luca Zammataro and
Guido Serini and
Todd Rowland and
Federico Bussolino Embryonic cleavage modeling as a
computational approach to sphere packing
problem . . . . . . . . . . . . . . . . 77--82
Mark P. Little A multi-compartment cell repopulation
model allowing for inter-compartmental
migration following radiation exposure,
applied to leukaemia . . . . . . . . . . 83--97
Stuart R. Borrett and
Brian D. Fath and
Bernard C. Patten Functional integration of ecological
networks through pathway proliferation 98--111
Norman F. Kirkby and
Sarah J. Jefferies and
Raj Jena and
Neil G. Burnet A mathematical model of the treatment
and survival of patients with high-grade
brain tumours . . . . . . . . . . . . . 112--124
Alexei Vazquez Epidemic outbreaks on structured
populations . . . . . . . . . . . . . . 125--129
Nebojsa T. Milosevi\'c and
Dusan Ristanovi\'c The Sholl analysis of neuronal cell
images: Semi-log or log-log method? . . 130--140
A. M. Reynolds and
D. R. Reynolds and
A. D. Smith and
G. P. Svensson and
C. Löfstedt Appetitive flight patterns of male
Agrotis segetum moths over landscape
scales . . . . . . . . . . . . . . . . . 141--149
Stephen Rothman The incoherence of the vesicle theory of
protein secretion . . . . . . . . . . . 150--160
K. Walters Modelling the probability distribution
of the number of DNA double-strand
breaks due to sporadic alkylation of
nucleotide bases . . . . . . . . . . . . 161--168
Marco Archetti and
Massimo Di Giulio The evolution of the genetic code took
place in an anaerobic environment . . . 169--174
Edelmira Valero and
Manuela García-Moreno and
Jesualdo Masiá and
María-José García-Meseguer and
Ramón Varón Kinetic behaviour of proenzymes
activation in the presence of different
inhibitors for both activating and
activated enzymes . . . . . . . . . . . 175--192
Mayuko Nakamaru and
Yoh Iwasa Corrigendum to ``The coevolution of
altruism and punishment: Role of the
selfish punisher'': [J. Theor. Biol. \bf
240 (2006) 475--488] . . . . . . . . . . 193--196
Anonymous Editorial Board . . . . . . . . . . . . CO2
Anonymous Pages 1--196 (7 March 2007) . . . . . . ??
E. Vautrin and
S. Charles and
S. Genieys and
F. Vavre Evolution and invasion dynamics of
multiple infections with Wolbachia
investigated using matrix based models 197--209
Richard R. Vance and
Andrew L. Nevai Plant population growth and competition
in a light gradient: a mathematical
model of canopy partitioning . . . . . . 210--219
Martin Baurmann and
Thilo Gross and
Ulrike Feudel Instabilities in spatially extended
predator-prey systems: Spatio-temporal
patterns in the neighborhood of
Turing-Hopf bifurcations . . . . . . . . 220--229
Shin I. Nishimura and
Masaki Sasai Modulation of the reaction rate of
regulating protein induces large
morphological and motional change of
amoebic cell . . . . . . . . . . . . . . 230--237
Yong Zhang and
Xin Zhao and
Peng-Ye Wang Molecular dynamics study of the fibril
elongation of the prion protein fragment
PrP106-126 . . . . . . . . . . . . . . . 238--242
Ryan Gutenkunst and
Nathaniel Newlands and
Molly Lutcavage and
Leah Edelstein-Keshet Inferring resource distributions from
Atlantic bluefin tuna movements: An
analysis based on net displacement and
length of track . . . . . . . . . . . . 243--257
Stephen Le and
Robert Boyd Evolutionary dynamics of the continuous
iterated Prisoner's dilemma . . . . . . 258--267
Sami Merilaita and
Graeme D. Ruxton Aposematic signals and the relationship
between conspicuousness and
distinctiveness . . . . . . . . . . . . 268--277
M. Bahman Bahramian Coupling of transcription termination to
RNAi . . . . . . . . . . . . . . . . . . 278--289
Z. Xie and
D. Kulasiri Modelling of circadian rhythms in
Drosophila incorporating the interlocked
PER/TIM and VRI/PDP1 feedback loops . . 290--304
Kheng Lim Goh and
Judith R. Meakin and
Richard M. Aspden and
David W. L. Hukins Stress transfer in collagen fibrils
reinforcing connective tissues: Effects
of collagen fibril slenderness and
relative stiffness . . . . . . . . . . . 305--311
Hao Guo and
Chong Zheng and
Elizabeth R. Gaillard Computational studies for the structure
and function of mRPE65 . . . . . . . . . 312--318
Sachi Yamaguchi and
Yuki Ozaki and
Yoichi Yusa and
Satoshi Takahashi Do tiny males grow up? Sperm competition
and optimal resource allocation schedule
of dwarf males of barnacles . . . . . . 319--328
Wayne S. Kendal Scale invariant correlations between
genes and SNPs on Human chromosome 1
reveal potential evolutionary mechanisms 329--340
Hal Whitehead Learning, climate and the evolution of
cultural capacity . . . . . . . . . . . 341--350
Rachata Muneepeerakul and
Joshua S. Weitz and
Simon A. Levin and
Andrea Rinaldo and
Ignacio Rodriguez-Iturbe A neutral metapopulation model of
biodiversity in river networks . . . . . 351--363
Satoshi Kato and
Jotaro Urabe and
Masakado Kawata Effects of temporal and spatial
heterogeneities created by
consumer-driven nutrient recycling on
algal diversity . . . . . . . . . . . . 364--377
Rodrick Wallace Culture and inattentional blindness: a
global workspace perspective . . . . . . 378--390
Anonymous Editorial Board . . . . . . . . . . . . CO2
Anonymous Pages 197--390 (21 March 2007) . . . . . ??
Ezequiel Franco-Lara and
Dirk Weuster-Botz Application of fuzzy-logic models for
metabolic control analysis . . . . . . . 391--399
Javier Macía and
Ricard V. Solé Protocell self-reproduction in a
spatially extended metabolism-vesicle
system . . . . . . . . . . . . . . . . . 400--410
Lee Worden and
Simon A. Levin Evolutionary escape from the prisoner's
dilemma . . . . . . . . . . . . . . . . 411--422
Carlotta Martelli and
Andrea Giansanti and
Ivan Arisi and
Vittorio Rosato Asymptotic states and topological
structure of an activation-deactivation
chemical network . . . . . . . . . . . . 423--432
Maximino Aldana and
Enrique Balleza and
Stuart Kauffman and
Osbaldo Resendiz Robustness and evolvability in genetic
regulatory networks . . . . . . . . . . 433--448
Dominik Wodarz Effect of stem cell turnover rates on
protection against cancer and aging . . 449--458
Rachel Kuske and
Luis F. Gordillo and
Priscilla Greenwood Sustained oscillations via coherence
resonance in SIR . . . . . . . . . . . . 459--469
E. S. McBryde and
A. N. Pettitt and
D. L. S. McElwain A stochastic mathematical model of
methicillin resistant Staphylococcus
aureus transmission in an intensive care
unit: Predicting the impact of
interventions . . . . . . . . . . . . . 470--481
Yael Artzy-Randrup and
Ronen Olinky and
Lewi Stone Size-structured demographic models of
coral populations . . . . . . . . . . . 482--497
Dobromir T. Dimitrov and
Thomas G. Hallam and
Charles E. Rupprecht and
Amy S. Turmelle and
Gary F. McCracken Integrative models of bat rabies
immunology, epizootiology and disease
demography . . . . . . . . . . . . . . . 498--509
Jinhui Wang and
Xudong Huang and
Weidong Huang A quantitative kinetic model for
ATP-induced intracellular Ca$^{2+}$
oscillations . . . . . . . . . . . . . . 510--519
Lena Edlund and
Evelyn Korn Hermaphroditism: What's not to like? . . 520--527
Mark Bebbington and
Chin-Diew Lai and
Ricardas Zitikis Modeling human mortality using mixtures
of bathtub shaped failure distributions 528--538
Shinsuke Suzuki and
Eizo Akiyama Evolution of indirect reciprocity in
groups of various sizes and comparison
with direct reciprocity . . . . . . . . 539--552
Tamara Münkemüller and
Karin Johst How does intraspecific density
regulation influence metapopulation
synchrony and persistence? . . . . . . . 553--563
Friederike Mengel The evolution of function-valued traits
for conditional cooperation . . . . . . 564--575
Anna Q. Cai and
Kerry A. Landman and
Barry D. Hughes Multi-scale modeling of a wound-healing
cell migration assay . . . . . . . . . . 576--594
Marco Archetti Colour preference as evidence for the
theories on the evolution of autumn
colours . . . . . . . . . . . . . . . . 595--596
Andrew Gelman Letter to the editors regarding some
papers of Dr. Satoshi Kanazawa . . . . . 597--599
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 391--600 (7 April 2007) . . . . . ??
Simone K. Heinz and
Christian Wissel and
Larissa Conradt and
Karin Frank Integrating individual movement
behaviour into dispersal functions . . . 601--609
Scott Hotton and
Mike E. Colvin Analytic formulas for discrete
stochastic models of cell populations
with both differentiation and
de-differentiation . . . . . . . . . . . 610--626
Sarah E. Geneser and
Robert M. Kirby and
Dongbin Xiu and
Frank B. Sachse Stochastic Markovian modeling of
electrophysiology of ion channels:
Reconstruction of standard deviations in
macroscopic currents . . . . . . . . . . 627--637
Stefan Braunewell and
Stefan Bornholdt Superstability of the yeast cell-cycle
dynamics: Ensuring causality in the
presence of biochemical stochasticity 638--643
Kozo Nagano and
Nozomi Nagano Mechanism of translation based on
intersubunit complementarities of
ribosomal RNAs and tRNAs . . . . . . . . 644--668
Brynja Kohler Mathematically modeling dynamics of T
cell responses: Predictions concerning
the generation of memory cells . . . . . 669--676
Paul Macklin and
John Lowengrub Nonlinear simulation of the effect of
microenvironment on tumor growth . . . . 677--704
Carey K. Bagdassarian and
Amy E. Dunham and
Christopher G. Brown and
Daniel Rauscher Biodiversity maintenance in food webs
with regulatory environmental feedbacks 705--714
Hani Goodarzi and
Ali Katanforoush and
Noorossadat Torabi and
Hamed Shateri Najafabadi Solvent accessibility, residue charge
and residue volume, the three
ingredients of a robust amino acid
substitution matrix . . . . . . . . . . 715--725
Dawei Hong and
William M. Saidel and
Shushuang Man and
Joseph V. Martin Extracellular noise-induced stochastic
synchronization in heterogeneous quorum
sensing network . . . . . . . . . . . . 726--736
A. Rami Tzafriri and
Elazer R. Edelman Quasi-steady-state kinetics at enzyme
and substrate concentrations in excess
of the Michaelis--Menten constant . . . 737--748
J. W. King and
K. Ruohonen and
D. J. Grove and
A. Hammerstein Nonlinear time series analysis of food
intake in the dab and the rainbow trout 749--762
Tobias van Kooten and
Lennart Persson and
André M. de Roos Population dynamical consequences of
gregariousness in a size-structured
consumer-resource interaction . . . . . 763--774
Ying-Li Chen and
Qian-Zhong Li Prediction of the subcellular location
of apoptosis proteins . . . . . . . . . 775--783
Paulo. R. Guimarães and
Roberta M. Bonaldo and
João P. Krajewski and
Paulo Guimarães and
Alu\'ìsio Pinheiro and
Joseph Powers and
Sérgio Furtado dos Reis Investigating small fish schools:
Selection of school-formation models by
means of general linear models and
numerical simulations . . . . . . . . . 784--789
Yun-Huei Tzeng and
Wen-Hsiung Li and
Trees-Juen Chuang Mathematical properties of some measures
of evolutionary distance . . . . . . . . 790--792
Anonymous Author Index . . . . . . . . . . . . . . 793--795
Anonymous Subject Index . . . . . . . . . . . . . 796--803
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 601--804 (21 April 2007) . . . . . ??
Emi Shudo and
Jin Yang and
Akihiko Yoshimura and
Yoh Iwasa Robustness of the signal transduction
system of the mammalian JAK/STAT pathway
and dimerization steps . . . . . . . . . 1--9
E. O. Jones and
A. White and
M. Boots Interference and the persistence of
vertically transmitted parasites . . . . 10--17
Lora Billings and
Ira B. Schwartz and
Leah B. Shaw and
Marie McCrary and
Donald S. Burke and
Derek A. T. Cummings Instabilities in multiserotype disease
models with antibody-dependent
enhancement . . . . . . . . . . . . . . 18--27
Xiaoli Feng and
Yuxiao Li and
Jianzhong Gu and
Yizhong Zhuo and
Huijie Yang Error thresholds for quasispecies on
single peak Gaussian-distributed fitness
landscapes . . . . . . . . . . . . . . . 28--32
Peter S. Kim and
Peter P. Lee and
Doron Levy Modeling regulation mechanisms in the
immune system . . . . . . . . . . . . . 33--69
Baris Hancioglu and
David Swigon and
Gilles Clermont A dynamical model of human immune
response to influenza A virus infection 70--86
S. Na and
G. A. Meininger and
J. D. Humphrey A theoretical model for F-actin
remodeling in vascular smooth muscle
cells subjected to cyclic stretch . . . 87--99
Sung Joon Moon and
B. Nabet and
Naomi E. Leonard and
Simon A. Levin and
I. G. Kevrekidis Heterogeneous animal group models and
their group-level alignment dynamics: An
equation-free approach . . . . . . . . . 100--112
Alexander Y. Mitrophanov and
Gordon Churchward and
Mark Borodovsky Control of \bionameStreptococcus
pyogenes virulence: Modeling of the
CovR/S signal transduction system . . . 113--128
Magnus Enquist and
Stefano Ghirlanda Evolution of social learning does not
explain the origin of human cumulative
culture . . . . . . . . . . . . . . . . 129--135
David E. Hiebeler and
Benjamin R. Morin The effect of static and dynamic
spatially structured disturbances on a
locally dispersing population . . . . . 136--144
Peter Hinow and
Erik M. Boczko Molecular seismology: An inverse problem
in nanobiology . . . . . . . . . . . . . 145--158
Samad Jahandideh and
Parviz Abdolmaleki and
Mina Jahandideh and
Ebrahim Barzegari Asadabadi Sequence and structural parameters
enhancing adaptation of proteins to low
temperatures . . . . . . . . . . . . . . 159--166
Marcio S. de Queiroz and
Grover L. Waldrop Modeling and numerical simulation of
biotin carboxylase kinetics:
Implications for half-sites reactivity 167--175
D. J. Raine and
V. Norris Lipid domain boundaries as prebiotic
catalysts of peptide bond formation . . 176--185
Vincent Moulton and
Charles Semple and
Mike Steel Optimizing phylogenetic diversity under
constraints . . . . . . . . . . . . . . 186--194
Tsutomu Takeuchi and
Takamichi Hinohara and
Gen Kurosawa and
Kenko Uchida A temperature-compensated model for
circadian rhythms that can be entrained
by temperature cycles . . . . . . . . . 195--204
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 1--204 (7 May 2007) . . . . . . . ??
G. Hartvigsen and
J. M. Dresch and
A. L. Zielinski and
A. J. Macula and
C. C. Leary Network structure, and vaccination
strategy and effort interact to affect
the dynamics of influenza epidemics . . 205--213
L. Olivares-Quiroz and
L. S. Garcia-Colin Protein's native state stability in a
chemically induced denaturation
mechanism . . . . . . . . . . . . . . . 214--224
Matina C. Donaldson and
Michael Lachmann and
Carl T. Bergstrom The evolution of functionally
referential meaning in a structured
world . . . . . . . . . . . . . . . . . 225--233
K. Qu and
A. Abi Haidar and
J. Fan and
L. Ensman and
K. Tuncay and
M. Jolly and
P. Ortoleva Cancer onset and progression: a
genome-wide, nonlinear dynamical systems
perspective on onconetworks . . . . . . 234--244
Heiko Enderling and
Mark A. J. Chaplain and
Alexander R. A. Anderson and
Jayant S. Vaidya A mathematical model of breast cancer
development, local treatment and
recurrence . . . . . . . . . . . . . . . 245--259
J. Camacho and
D. B. Stouffer and
L. A. N. Amaral Quantitative analysis of the local
structure of food webs . . . . . . . . . 260--268
C. Jolly and
A. J. L. Cook and
J. Raferty and
M. E. Jones Measuring bidirectional mutation . . . . 269--277
C. A. Klausmeier and
E. Litchman and
S. A. Levin A model of flexible uptake of two
essential resources . . . . . . . . . . 278--289
F. Llaneras and
J. Picó An interval approach for dealing with
flux distributions and elementary modes
activity patterns . . . . . . . . . . . 290--308
Song Cheng Lorentzian model of roots for understory
yellow birch and sugar maple saplings 309--322
Hiroshi Haeno and
Yoh Iwasa Probability of resistance evolution for
exponentially growing virus in the host 323--331
Marco A. Huertas and
Gregory D. Smith The dynamics of luminal depletion and
the stochastic gating of
Ca$^{2+}$-activated Ca$^{2+}$ channels
and release sites . . . . . . . . . . . 332--354
John K. Kelly Mutation-selection balance in mixed
mating populations . . . . . . . . . . . 355--365
J. David Logan and
William Wolesensky An index to measure the effects of
temperature change on trophic
interactions . . . . . . . . . . . . . . 366--376
R. Miftahof and
N. Akhmadeev Dynamics of intestinal propulsion . . . 377--393
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 205--394 (21 May 2007) . . . . . . ??
Stefanie Widder and
Josef Schicho and
Peter Schuster Dynamic patterns of gene regulation I:
Simple two-gene systems . . . . . . . . 395--419
Philip H. Crowley and
Mary K. Hart Evolutionary stability of egg trading
and parceling in simultaneous
hermaphrodites: The chalk bass revisited 420--429
H. Croisier and
P. C. Dauby Continuation and bifurcation analysis of
a periodically forced excitable system 430--448
R. Serra and
M. Villani and
A. Graudenzi and
S. A. Kauffman Why a simple model of genetic regulatory
networks describes the distribution of
avalanches in gene expression data . . . 449--460
Olaf Wolkenhauer and
Jan-Hendrik S. Hofmeyr An abstract cell model that describes
the self-organization of cell function
in living systems . . . . . . . . . . . 461--476
Stefan Berking Generation of bilateral symmetry in
Anthozoa: a model . . . . . . . . . . . 477--490
Armand Bankhead and
Nancy S. Magnuson and
Robert B. Heckendorn Cellular automaton simulation examining
progenitor hierarchy structure effects
on mammary ductal carcinoma in situ . . 491--498
O. Krakovska and
L. M. Wahl Optimal drug treatment regimens for HIV
depend on adherence . . . . . . . . . . 499--509
Diego Medan and
Roberto P. J. Perazzo and
Mariano Devoto and
Enrique Burgos and
Mart\'ìn G. Zimmermann and
Horacio Ceva and
Ana M. Delbue Analysis and assembling of network
structure in mutualistic systems . . . . 510--521
Arne Traulsen and
Jorge M. Pacheco and
Martin A. Nowak Pairwise comparison and selection
temperature in evolutionary game
dynamics . . . . . . . . . . . . . . . . 522--529
Norio Yamamura and
Noboru Fujita and
Motoyuki Hayashi and
Yusuke Nakamura and
Atsushi Yamauchi Optimal phenology of annual plants under
grazing pressure . . . . . . . . . . . . 530--537
Takuyo Aita and
Yuuki Hayashi and
Hitoshi Toyota and
Yuzuru Husimi and
Itaru Urabe and
Tetsuya Yomo Extracting characteristic properties of
fitness landscape from in vitro
molecular evolution: a case study on
infectivity of fd phage to \bionameE.
coli . . . . . . . . . . . . . . . . . . 538--550
Matthijs van Veelen Hamilton's missing link . . . . . . . . 551--554
Hiromi Seno and
Hiromi Endo A mathematical model on the optimal
timing of offspring desertion . . . . . 555--563
Amita Pal and
Arunabha Chakrabarti and
Jolly Basak New motifs within the NB-ARC domain of R
proteins: Probable mechanisms of
integration of geminiviral signatures
within the host species of
\bionameFabaceae family and implications
in conferring disease resistance . . . . 564--573
Anindita Bhadra and
Priya L. Iyer and
A. Sumana and
Sujata A. Deshpande and
Saubhik Ghosh and
Raghavendra Gadagkar How do workers of the primitively
eusocial wasp Ropalidia marginata detect
the presence of their queens? . . . . . 574--582
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 395--582 (7 June 2007) . . . . . . ??
P. Gerlee and
A. R. A. Anderson An evolutionary hybrid cellular
automaton model of solid tumour growth 583--603
John H. Schwacke and
Eberhard O. Voit The potential for signal integration and
processing in interacting MAP kinase
cascades . . . . . . . . . . . . . . . . 604--620
David B. Chang and
Carl S. Young Simple scaling laws for influenza A rise
time, duration, and severity . . . . . . 621--635
Martin O'Hely and
Leesa Wockner Models for loosely linked gene
duplicates suggest lengthy persistence
of both copies . . . . . . . . . . . . . 636--645
Shingo Iwami and
Yasuhiro Takeuchi and
Yoshiharu Miura and
Toru Sasaki and
Tsuyoshi Kajiwara Dynamical properties of autoimmune
disease models: Tolerance, flare-up,
dormancy . . . . . . . . . . . . . . . . 646--659
John R. Hutchinson and
Victor Ng-Thow-Hing and
Frank C. Anderson A 3D interactive method for estimating
body segmental parameters in animals:
Application to the turning and running
performance of Tyrannosaurus rex . . . . 660--680
Hisashi Ohtsuki and
Jorge M. Pacheco and
Martin A. Nowak Evolutionary graph theory: Breaking the
symmetry between interaction and
replacement . . . . . . . . . . . . . . 681--694
Akiko Satake and
Heather M. Leslie and
Yoh Iwasa and
Simon A. Levin Coupled ecological-social dynamics in a
forested landscape: Spatial interactions
and information flow . . . . . . . . . . 695--707
Valerie J. Grant Could maternal testosterone levels
govern mammalian sex ratio deviations? 708--719
Roger Härdling Fairness evolution in the ultimatum game
is a function of reward size . . . . . . 720--724
Rui Zhu and
Andre S. Ribeiro and
Dennis Salahub and
Stuart A. Kauffman Studying genetic regulatory networks at
the molecular level: Delayed reaction
stochastic models . . . . . . . . . . . 725--745
Shin Fukui and
Takema Fukatsu and
Takashi Ikegami and
Masakazu Shimada Endosymbiosis as a compact ecosystem
with material cycling: Parasitism or
mutualism? . . . . . . . . . . . . . . . 746--754
Zhangang Han and
Thomas M. Vondriska and
Ling Yang and
W. Robb MacLellan and
James N. Weiss and
Zhilin Qu Signal transduction network motifs and
biological memory . . . . . . . . . . . 755--761
Anonymous Author Index . . . . . . . . . . . . . . 762--764
Anonymous Subject Index . . . . . . . . . . . . . 765--771
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 583--772 (21 June 2007) . . . . . ??
Ydo Wexler and
Oleg Rokhlenko Prisoner's dilemma posed by
fitness-associated recombination
strategies . . . . . . . . . . . . . . . 1--10
Jean-Baptiste André and
Troy Day Perfect reciprocity is the only
evolutionarily stable strategy in the
continuous iterated prisoner's dilemma 11--22
Stanca M. Ciupe and
Ruy M. Ribeiro and
Patrick W. Nelson and
Alan S. Perelson Modeling the mechanisms of acute
hepatitis B virus infection . . . . . . 23--35
John M. Anderies and
Madhusudan Katti and
Eyal Shochat Living in the city: Resource
availability, predation, and bird
population dynamics in urban areas . . . 36--49
S. Ghosh and
S. Bhattacharyya Effect of temperature on viral infection
and its control: a mathematical approach 50--63
Hannah M. Lewis and
Richard Law Effects of dynamics on ecological
networks . . . . . . . . . . . . . . . . 64--76
Ingeborg M. M. van Leeuwen and
Helen M. Byrne and
Oliver E. Jensen and
John R. King Elucidating the interactions between the
adhesive and transcriptional functions
of $ \beta $-catenin in normal and
cancerous cells . . . . . . . . . . . . 77--102
Qi Dai and
Xiao-qing Liu and
Tian-ming Wang C(i,j) matrix: a better numerical
characterization for graphical
representations of biological sequences 103--109
N. Kurochkina Amino acid composition of parallel
helix-helix interfaces . . . . . . . . . 110--121
Kalet Leon and
Karina Garcia and
Jorge Carneiro and
Agustin Lage How regulatory CD25 + CD4 + T cells
impinge on tumor immunobiology? On the
existence of two alternative dynamical
classes of tumors . . . . . . . . . . . 122--137
Kazumoto Iguchi and
Shu-ichi Kinoshita and
Hiroaki S. Yamada Boolean dynamics of Kauffman models with
a scale-free network . . . . . . . . . . 138--151
Chrisantha Fernando and
Jonathan Rowe Natural selection in chemical evolution 152--167
C. Pagnutti and
M. Azzouz and
M. Anand Propagation of local interactions create
global gap structure and dynamics in a
tropical rainforest . . . . . . . . . . 168--181
J. R. C. Piqueira and
G. M. Fagali and
M. de Pinho and
R. F. Sanches and
C. M. Del-Ben and
A. W. Zuardi Bits and q-bits in a psychiatric ward 182--185
Katarzyna A. Rejniak An immersed boundary framework for
modelling the growth of individual
cells: An application to the early
tumour development . . . . . . . . . . . 186--204
Jordi Bascompte and
Bartolo Luque and
Jose Olarrea and
Lucas Lacasa A probabilistic model of reserve design 205--211
Edelmira Valero and
Manuela García-Moreno and
Jesualdo Masiá and
María-José García-Meseguer and
Ramón Varón Corrigendum to ``Kinetic behaviour of
proenzymes activation in the presence of
different inhibitors for both activating
and activated enzymes'': [J. Theor.
Biol. \bf 245 (2007) 175--192] . . . . . 212--212
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 1--212 (7 July 2007) . . . . . . . ??
Van M. Savage and
Colleen T. Webb and
Jon Norberg A general multi-trait-based framework
for studying the effects of biodiversity
on ecosystem functioning . . . . . . . . 213--229
M. R. Bennett and
L. Farnell and
W. G. Gibson and
P. Dickens Mechanisms of calcium sequestration
during facilitation at active zones of
an amphibian neuromuscular junction . . 230--241
Ron Skupsky and
Colin McCann and
Ralph Nossal and
Wolfgang Losert Bias in the gradient-sensing response of
chemotactic cells . . . . . . . . . . . 242--258
Xian Pu and
Jian Guo and
Howard Leung and
Yuanlie Lin Prediction of membrane protein types
from sequences and position-specific
scoring matrices . . . . . . . . . . . . 259--265
Bree Cummins and
Tomás Gedeon and
Isaac Klapper and
Ricardo Cortez Interaction between arthropod filiform
hairs in a fluid environment . . . . . . 266--280
Motohide Seki and
Joe Yuichiro Wakano and
Yasuo Ihara A theoretical study on the evolution of
male parental care and female multiple
mating: Effects of female mate choice
and male care bias . . . . . . . . . . . 281--296
Marshall Hampton and
Matthew T. Andrews A simple molecular mathematical model of
mammalian hibernation . . . . . . . . . 297--302
Isabel Reinecke and
Peter Deuflhard A complex mathematical model of the
human menstrual cycle . . . . . . . . . 303--330
Miguel A. Fortuna and
Carlos J. Melián Do scale-free regulatory networks allow
more expression than random ones? . . . 331--336
Gabriel L. Maser and
Frédéric Guichard and
Kevin S. McCann Weak trophic interactions and the
balance of enriched metacommunities . . 337--345
Anand Anbarasu and
Rao Sethumadhavan Exploring the role of cation--$ \pi $
interactions in glycoproteins
lipid-binding proteins and RNA-binding
proteins . . . . . . . . . . . . . . . . 346--353
Junji Konuma and
Satoshi Chiba Ecological character displacement caused
by reproductive interference . . . . . . 354--364
Frans L. Roes Outside opportunities and costs incurred
by others . . . . . . . . . . . . . . . 365--370
Harel Dahari and
Arthur Lo and
Ruy M. Ribeiro and
Alan S. Perelson Modeling hepatitis C virus dynamics:
Liver regeneration and critical drug
efficacy . . . . . . . . . . . . . . . . 371--381
Geoff Wild and
Arne Traulsen The different limits of weak selection
and the evolutionary dynamics of finite
populations . . . . . . . . . . . . . . 382--390
Jean-Luc Jestin and
Christophe Soulé Symmetries by base substitutions in the
genetic code predict 2' or 3'
aminoacylation of tRNAs . . . . . . . . 391--394
William H. James Support for a hypothesis on the
offspring sex ratios of hepatitis B
carriers . . . . . . . . . . . . . . . . 395--395
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 213--396 (21 July 2007) . . . . . ??
Gilles Saint-Paul On market forces and human evolution . . 397--412
Emmanuel Tannenbaum When does division of labor lead to
increased system output? . . . . . . . . 413--425
Sevan G. Ficici and
Jordan B. Pollack Evolutionary dynamics of finite
populations in games with polymorphic
fitness equilibria . . . . . . . . . . . 426--441
Evgeni V. Nikolaev and
Jordan C. Atlas and
Michael L. Shuler Sensitivity and control analysis of
periodically forced reaction networks
using the Green's function method . . . 442--461
Hisashi Ohtsuki and
Martin A. Nowak Direct reciprocity on graphs . . . . . . 462--470
Andrew L. Nevai and
Thomas A. Waite and
Kevin M. Passino State-dependent choice and ecological
rationality . . . . . . . . . . . . . . 471--479
Marco Uttieri and
Daniela Cianelli and
J. Rudi Strickler and
Enrico Zambianchi On the relationship between fractal
dimension and encounters in
three-dimensional trajectories . . . . . 480--491
J. V. Greenman and
R. A. Norman Environmental forcing, invasion and
control of ecological and
epidemiological systems . . . . . . . . 492--506
Hui Wan and
Jing'an Cui An SEIS epidemic model with
transport-related infection . . . . . . 507--524
Matthew J. Simpson and
Kerry A. Landman and
Kaushik Bhaganagarapu Coalescence of interacting cell
populations . . . . . . . . . . . . . . 525--543
Günter P. Wagner and
Wolfgang Otto and
Vincent Lynch and
Peter F. Stadler A stochastic model for the evolution of
transcription factor binding site
abundance . . . . . . . . . . . . . . . 544--553
Gernot Schaller and
Michael Meyer-Hermann A modelling approach towards epidermal
homoeostasis control . . . . . . . . . . 554--573
Lorens A. Imhof and
Drew Fudenberg and
Martin A. Nowak Tit-for-tat or win-stay, lose-shift? . . 574--580
Paul Macklin and
John Lowengrub Erratum to ``Nonlinear simulation of the
effect of microenvironment on tumor
growth'': [J. Theor. Biol. \bf 245
(2007) 677--704] . . . . . . . . . . . . 581--581
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 397--582 (7 August 2007) . . . . . ??
Melissa A. St. Hilaire and
Elizabeth B. Klerman and
Sat Bir S. Khalsa and
Kenneth P. Wright and
Charles A. Czeisler and
Richard E. Kronauer Addition of a non-photic component to a
light-based mathematical model of the
human circadian pacemaker . . . . . . . 583--599
Ryan A. Chisholm Sampling species abundance
distributions: Resolving the veil-line
debate . . . . . . . . . . . . . . . . . 600--607
Yuanbo Diao and
Menglong Li and
Zinan Feng and
Jiajian Yin and
Yi Pan The community structure of human
cellular signaling network . . . . . . . 608--615
Joe Yuichiro Wakano Evolution of cooperation in spatial
public goods games with common resource
dynamics . . . . . . . . . . . . . . . . 616--622
Erin R. Higgins and
Pranay Goel and
Jose L. Puglisi and
Donald M. Bers and
Mark Cannell and
James Sneyd Modelling calcium microdomains using
homogenisation . . . . . . . . . . . . . 623--644
Fangcui Zhao and
Huijie Yang and
Binghong Wang Complexities of human promoter sequences 645--649
Joanna Szymanowska-Pulka Application of a changing field of
growth rates to a description of root
apex formation . . . . . . . . . . . . . 650--656
Makoto Iima A two-dimensional aerodynamic model of
freely flying insects . . . . . . . . . 657--671
P. Gaspard and
E. Gerritsma The stochastic chemomechanics of the F1
-ATPase molecular motor . . . . . . . . 672--686
Changchuan Yin and
Stephen S.-T. Yau Prediction of protein coding regions by
the $3$-base periodicity analysis of a
DNA sequence . . . . . . . . . . . . . . 687--694
Atul Narang Effect of DNA looping on the induction
kinetics of the lac operon . . . . . . . 695--712
Satoshi Uchida and
Barbara Drossel Relation between complexity and
stability in food webs with adaptive
behavior . . . . . . . . . . . . . . . . 713--722
F. Castiglione and
B. Piccoli Cancer immunotherapy, mathematical
modeling and optimal control . . . . . . 723--732
Abhyudai Singh and
Roger M. Nisbet Semi-discrete host-parasitoid models . . 733--742
Andre S. Ribeiro and
Stuart A. Kauffman Noisy attractors and ergodic sets in
models of gene regulatory networks . . . 743--755
Jun Tanimoto Does a tag system effectively support
emerging cooperation? . . . . . . . . . 756--764
Caroline Colijn and
Ted Cohen and
Megan Murray Emergent heterogeneity in declining
tuberculosis epidemics . . . . . . . . . 765--774
Martin Kroon and
Gerhard A. Holzapfel A model for saccular cerebral aneurysm
growth by collagen fibre remodelling . . 775--787
Lasse Loepfe and
Jordi Martinez-Vilalta and
Josep Piñol and
Maurizio Mencuccini The relevance of xylem network structure
for plant hydraulic efficiency and
safety . . . . . . . . . . . . . . . . . 788--803
Libin Rong and
Michael A. Gilchrist and
Zhilan Feng and
Alan S. Perelson Modeling within-host HIV-1 dynamics and
the evolution of drug resistance:
Trade-offs between viral enzyme function
and drug susceptibility . . . . . . . . 804--818
Josep L. Garcia-Domingo and
Joan Saldaña Food-web complexity emerging from
ecological dynamics on adaptive networks 819--826
Yi Tao and
Xiudeng Zheng and
Yuehua Sun Effect of feedback regulation on
stochastic gene expression . . . . . . . 827--836
Blaise Faugeras and
Olivier Maury Modeling fish population movements: From
an individual-based representation to an
advection-diffusion equation . . . . . . 837--848
A. J. McKane and
D. Waxman Singular solutions of the diffusion
equation of population genetics . . . . 849--858
Robert W. Korn Watermelon Stripes. A Case for the
Clonal Mosaic Model in Plants . . . . . 859--861
C. Jolly and
A. J. L. Cook and
J. Raftery and
M. E. Jones Corrigendum to ``Measuring bidirectional
mutation'': [J. Theor. Biol. \bf 246
(2006) 269--277] . . . . . . . . . . . . 862--862
Anonymous Author Index . . . . . . . . . . . . . . 863--865
Anonymous Subject Index . . . . . . . . . . . . . 866--872
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 583--872 (21 August 2007) . . . . ??
Sohrab Saeb and
Shahriar Gharibzadeh and
Farzad Towhidkhah and
Aydin Farajidavar Modeling the primary auditory cortex
using dynamic synapses: Can synaptic
plasticity explain the temporal tuning? 1--9
N. Bairagi and
P. K. Roy and
J. Chattopadhyay Role of infection on the stability of a
predator-prey system with several
response functions --- a comparative
study . . . . . . . . . . . . . . . . . 10--25
Benjamin Lovegren de Bivort and
Chun-Chung Chen and
Fabrizio Perretti and
Giacomo Negro and
Thomas M. Philip and
Yaneer Bar-Yam Metabolic implications for the mechanism
of mitochondrial endosymbiosis and human
hereditary disorders . . . . . . . . . . 26--36
J. G. Rodríguez-González and
M. Santillán and
A. C. Fowler and
Michael C. Mackey The segmentation clock in mice:
Interaction between the Wnt and Notch
signalling pathways . . . . . . . . . . 37--47
Tanya L. Leise and
Emily E. Moin A mathematical model of the Drosophila
circadian clock with emphasis on
posttranslational mechanisms . . . . . . 48--63
Elan Gin and
Edmund J. Crampin and
David A. Brown and
Trevor J. Shuttleworth and
David I. Yule and
James Sneyd A mathematical model of fluid secretion
from a parotid acinar cell . . . . . . . 64--80
Anupam Nath Jha and
G. K. Ananthasuresh and
Saraswathi Vishveshwara Protein sequence design based on the
topology of the native state structure 81--90
Jenni Heino and
Knarik Tunyan and
Daniela Calvetti and
Erkki Somersalo Bayesian flux balance analysis applied
to a skeletal muscle metabolic model . . 91--110
Stephen T. Abedon and
Rachel R. Culler Bacteriophage evolution given spatial
constraint . . . . . . . . . . . . . . . 111--119
Hendrik B. Tiedemann and
Elida Schneltzer and
Stefan Zeiser and
Isabel Rubio-Aliaga and
Wolfgang Wurst and
Johannes Beckers and
Gerhard K. H. Przemeck and
Martin Hrabé de Angelis Cell-based simulation of dynamic
expression patterns in the presomitic
mesoderm . . . . . . . . . . . . . . . . 120--129
William Dampier and
Aydin Tozeren Signaling perturbations induced by
invading \bionameH. pylori proteins in
the host epithelial cells: a
mathematical modeling approach . . . . . 130--144
Boyu Zhang and
Zhibin Zhang and
Zhenqing Li and
Yi Tao Stability analysis of a two-species
model with transitions between
population interactions . . . . . . . . 145--153
Martin Hoyle and
James E. Cresswell A search theory model of patch-to-patch
forager movement with application to
pollinator-mediated gene flow . . . . . 154--163
Christelle Lopes and
Thierry Spataro and
Christophe Doursat and
Laurent Lapchin and
Roger Arditi An implicit approach to model plant
infestation by insect pests . . . . . . 164--178
Yaji Xu and
Linda J. S. Allen and
Alan S. Perelson Stochastic model of an influenza
epidemic with drug resistance . . . . . 179--193
Akihiko Mougi and
Kinya Nishimura A resolution of the paradox of
enrichment . . . . . . . . . . . . . . . 194--201
Ben Adams and
Michael Boots The influence of immune cross-reaction
on phase structure in resonant solutions
of a multi-strain seasonal SIR model . . 202--211
Simona Hapca and
John W. Crawford and
Keith MacMillan and
Mike J. Wilson and
Iain M. Young Modelling nematode movement using
time-fractional dynamics . . . . . . . . 212--224
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 1--224 (7 September 2007) . . . . ??
Pei Zhang and
Gregory J. Sandland and
Zhilan Feng and
Dashun Xu and
Dennis J. Minchella Evolutionary implications for
interactions between multiple strains of
host and parasite . . . . . . . . . . . 225--240
Thomas Evans and
Roger G. Bowers and
Martin Mortimer Modelling the stability of Stx lysogens 241--250
Miklós Péter Kalapos The energetics of the reductive citric
acid cycle in the pyrite-pulled surface
metabolism in the early stage of
evolution . . . . . . . . . . . . . . . 251--258
Antonio Cappuccio and
Moran Elishmereni and
Zvia Agur Optimization of interleukin-21
immunotherapeutic strategies . . . . . . 259--266
Mayumi Seto and
Tasuku Akagi Coexistence introducing regulation of
environmental conditions . . . . . . . . 267--274
Melvin Khee-Shing Leow A mathematical model of
pituitary-thyroid interaction to provide
an insight into the nature of the
thyrotropin-thyroid hormone relationship 275--287
Mayuko Nakamaru and
Yayoi Beppu and
Kazuki Tsuji Does disturbance favor dispersal? An
analysis of ant migration using the
colony-based lattice model . . . . . . . 288--300
Luca Ridolfi and
Paolo D'Odorico and
Francesco Laio Vegetation dynamics induced by
phreatophyte-aquifer interactions . . . 301--310
Agnieszka Ruebenbauer Simulation of the neural response to the
odour stimulus . . . . . . . . . . . . . 311--316
C. F. Lo Stochastic Gompertz model of tumour cell
growth . . . . . . . . . . . . . . . . . 317--321
Brian I. Crother and
Mary E. White and
Andrew D. Johnson Inferring developmental constraint and
constraint release: Primordial germ cell
determination mechanisms as examples . . 322--330
Maxine Kwan and
Mont Hubbard Optimal foot shape for a passive dynamic
biped . . . . . . . . . . . . . . . . . 331--339
N. G. Cogan Incorporating toxin hypothesis into a
mathematical model of persister
formation and dynamics . . . . . . . . . 340--349
Alexey V. Melkikh and
Vladimir D. Seleznev Models of active transport of
neurotransmitters in synaptic vesicles 350--353
Lukasz A. Kurgan and
Wojciech Stach and
Jishou Ruan Novel scales based on hydrophobicity
indices for secondary protein structure 354--366
Motoyuki Hayashi and
Noboru Fujita and
Atsushi Yamauchi Theory of grazing optimization in which
herbivory improves photosynthetic
ability . . . . . . . . . . . . . . . . 367--376
Ying-Li Chen and
Qian-Zhong Li Prediction of apoptosis protein
subcellular location using improved
hybrid approach and pseudo-amino acid
composition . . . . . . . . . . . . . . 377--381
Lewi Stone and
Daihai He Chaotic oscillations and cycles in
multi-trophic ecological systems . . . . 382--390
Morten Gram Pedersen Phantom bursting is highly sensitive to
noise and unlikely to account for slow
bursting in $ \beta $-cells:
Considerations in favor of metabolically
driven oscillations . . . . . . . . . . 391--400
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 225--400 (21 September 2007) . . . ??
Pooria Jafari Moghaddam Fard and
Mohammad Reza Tajvidi and
Shahriar Gharibzadeh High-pressure hydrocephalus: a novel
analytical modeling approach . . . . . . 401--410
T. Antal and
K. B. Blagoev and
S. A. Trugman and
S. Redner Aging and immortality in a cell
proliferation model . . . . . . . . . . 411--417
Yann Guédon and
Yves Caraglio and
Patrick Heuret and
Emilie Lebarbier and
Céline Meredieu Analyzing growth components in trees . . 418--447
Jordi Ferrer and
Jaume Vidal and
Clara Prats and
Joaquim Valls and
Esperanza Herreros and
Daniel Lopez and
Antoni Giró and
Domingo Gargallo Individual-based model and simulation of
\bionamePlasmodium falciparum infected
erythrocyte in vitro cultures . . . . . 448--459
I. Hariton and
G. deBotton and
T. C. Gasser and
G. A. Holzapfel Stress-modulated collagen fiber
remodeling in a human carotid
bifurcation . . . . . . . . . . . . . . 460--470
Dirk Koschützki and
Henning Schwöbbermeyer and
Falk Schreiber Ranking of network elements based on
functional substructures . . . . . . . . 471--479
G. E. Yates and
M. Broom Stochastic models of kleptoparasitism 480--489
Vishwesha Guttal and
C. Jayaprakash Self-organization and productivity in
semi-arid ecosystems: Implications of
seasonality in rainfall . . . . . . . . 490--500
Andrew Yu. Morozov and
Sergei V. Petrovskii and
Nikolay P. Nezlin Towards resolving the paradox of
enrichment: The impact of zooplankton
vertical migrations on plankton systems
stability . . . . . . . . . . . . . . . 501--511
Leszek Gasieniec and
Cindy Y. Li and
Paul Sant and
Prudence W. H. Wong Randomized probe selection algorithm for
microarray design . . . . . . . . . . . 512--521
Rampal S. Etienne and
David Alonso and
Alan J. McKane The zero-sum assumption in neutral
biodiversity theory . . . . . . . . . . 522--536
Yueheng Lan and
Garegin A. Papoian Evolution of complex probability
distributions in enzyme cascades . . . . 537--545
Xi-Bin Zhou and
Chao Chen and
Zhan-Chao Li and
Xiao-Yong Zou Using Chou's amphiphilic pseudo-amino
acid composition and support vector
machine for prediction of enzyme
subfamily classes . . . . . . . . . . . 546--551
Akihiko Mougi and
Kinya Nishimura Evolution of life-history traits
collapses competitive coexistence . . . 552--559
Attila Tóth and
Ethel Queralt and
Frank Uhlmann and
Béla Novák Mitotic exit in two dimensions . . . . . 560--573
Vasili Hauryliuk Evolution of translational machinery:
Could translation termination come into
being before elongation? . . . . . . . . 574--578
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 401--578 (7 October 2007) . . . . ??
Yong-Tao Zhang and
Arthur D. Lander and
Qing Nie Computational analysis of BMP gradients
in dorsal-ventral patterning of the
zebrafish embryo . . . . . . . . . . . . 579--589
H. Kimura and
H. Okano and
R. J. Tanaka Stochastic approach to molecular
interactions and computational theory of
metabolic and genetic regulations . . . 590--607
M. Gabriela M. Gomes and
Paula Rodrigues and
Frank M. Hilker and
Natalia B. Mantilla-Beniers and
Marion Muehlen and
Ana Cristina Paulo and
Graham F. Medley Implications of partial immunity on the
prospects for tuberculosis control by
post-exposure interventions . . . . . . 608--617
Deok-Sun Lee and
Heiko Rieger Comparative study of the transcriptional
regulatory networks of \bionameE. coli
and yeast: Structural characteristics
leading to marginal dynamic stability 618--626
Janko Gravner and
Damien Pitman and
Sergey Gavrilets Percolation on fitness landscapes:
Effects of correlation, phenotype, and
incompatibilities . . . . . . . . . . . 627--645
Enrique Canessa Modeling of body mass index by Newton's
second law . . . . . . . . . . . . . . . 646--656
Nikolaos M. Tsoukias and
Daniel Goldman and
Arjun Vadapalli and
Roland N. Pittman and
Aleksander S. Popel A computational model of oxygen delivery
by hemoglobin-based oxygen carriers in
three-dimensional microvascular networks 657--674
M. Kaufman and
C. Soulé and
R. Thomas A new necessary condition on interaction
graphs for multistationarity . . . . . . 675--685
Sharon R. Bullimore and
Jeremy F. Burn Ability of the planar spring-mass model
to predict mechanical parameters in
running humans . . . . . . . . . . . . . 686--695
Rajamanickam Murugan Action at distance along the DNA: a
random jump model on enhancer action . . 696--705
Angela Angeleska and
Natasa Jonoska and
Masahico Saito and
Laura F. Landweber RNA-guided DNA assembly . . . . . . . . 706--720
Samad Jahandideh and
Ebrahim Barzegari Asadabadi and
Parviz Abdolmaleki and
Mina Jahandideh and
Somayyeh Hoseini Protein psychrophilicity: Role of
residual structural properties in
adaptation of proteins to low
temperatures . . . . . . . . . . . . . . 721--726
Ning Du and
Jintu Fan and
Huijun Wu and
Shuo Chen and
Yang Liu An improved model of heat transfer
through penguin feathers and down . . . 727--735
Péter Szabó and
Tamás Czárán and
György Szabó Competing associations in bacterial
warfare with two toxins . . . . . . . . 736--744
Donald R. Forsdyke Calculation of folding energies of
single-stranded nucleic acid sequences:
Conceptual issues . . . . . . . . . . . 745--753
Anonymous Author Index . . . . . . . . . . . . . . 754--756
Anonymous Subject Index . . . . . . . . . . . . . 757--763
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 579--764 (21 October 2007) . . . . ??
Tatiana Lomasko and
Geoff Clarke and
Charles J. Lumsden One-hit stochastic decline in a
mechanochemical model of
cytoskeleton-induced neuron death I:
Cell-fate arrival times . . . . . . . . 1--17
Tatiana Lomasko and
Geoff Clarke and
Charles J. Lumsden One-hit stochastic decline in a
mechanochemical model of
cytoskeleton-induced neuron death II:
Transition state metastability . . . . . 18--28
Alejandro López and
Humberto Arce and
Michael R. Guevara Rhythms of high-grade block in an ionic
model of a strand of regionally ischemic
ventricular muscle . . . . . . . . . . . 29--45
Antonio J. Golubski Interactive effects of builders and
exploiters on environmental quality and
the outcome of competition between the
two . . . . . . . . . . . . . . . . . . 46--57
Nikhil Gandhi and
Gonen Ashkenasy and
Emmanuel Tannenbaum Associative learning in biochemical
networks . . . . . . . . . . . . . . . . 58--66
Piotr H. Pawlowski Mechanokinetic model of cell membrane:
Theoretical analysis of plasmalemma
homeostasis, growth and division . . . . 67--76
Patrik Karlsson and
Tomas Jonsson and
Annie Jonsson Food web structure and interaction
strength pave the way for vulnerability
to extinction . . . . . . . . . . . . . 77--92
Shinsuke Suzuki and
Eizo Akiyama Three-person game facilitates indirect
reciprocity under image scoring . . . . 93--100
Peter D. Taylor and
Troy Day and
Geoff Wild From inclusive fitness to fixation
probability in homogeneous structured
populations . . . . . . . . . . . . . . 101--110
T. Hölttä and
T. Vesala and
E. Nikinmaa A model of bubble growth leading to
xylem conduit embolism . . . . . . . . . 111--123
Filip J. R. Meysman and
Stijn Bruers A thermodynamic perspective on food
webs: Quantifying entropy production
within detrital-based ecosystems . . . . 124--139
Steven D. Webb and
Matt J. Keeling and
Mike Boots Host-parasite interactions between the
local and the mean-field: How and when
does spatial population structure
matter? . . . . . . . . . . . . . . . . 140--152
Samuel Cotton and
Claus Wedekind Introduction of Trojan sex chromosomes
to boost population growth . . . . . . . 153--161
Hervé Seligmann Cost minimization of ribosomal
frameshifts . . . . . . . . . . . . . . 162--167
Dafeng Hui and
Robert B. Jackson Uncertainty in allometric exponent
estimation: a case study in scaling
metabolic rate with body mass . . . . . 168--177
Michael R. King Do blood capillaries exhibit optimal
bumpiness? . . . . . . . . . . . . . . . 178--180
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 1--180 (7 November 2007) . . . . . ??
Paulo R. Guimarães and
Glauco Machado and
Marcus A. M. de Aguiar and
Pedro Jordano and
Jordi Bascompte and
Alu\'ìsio Pinheiro and
Sérgio Furtado dos Reis Build-up mechanisms determining the
topology of mutualistic networks . . . . 181--189
A. J. Wood and
J. B. Coe A fitness based analysis of Daisyworld 190--197
Omar Tonsi Eldakar and
Dene Leo Farrell and
David Sloan Wilson Selfish punishment: Altruism can be
maintained by competition among cheaters 198--205
M. Llobera and
T. J. Sluckin Zigzagging: Theoretical insights on
climbing strategies . . . . . . . . . . 206--217
Tristan Kimbrell and
Robert D. Holt and
Per Lundberg The influence of vigilance on intraguild
predation . . . . . . . . . . . . . . . 218--234
Samuel Bottani and
Basile Grammaticos Analysis of a minimal model for p53
oscillations . . . . . . . . . . . . . . 235--245
Andrew Yu. Morozov and
Cécile Robin and
Alain Franc A simple model for the dynamics of a
host-parasite-hyperparasite interaction 246--253
Shili Lin Mixture modeling of progression pathways
of heterogeneous breast tumors . . . . . 254--261
Eric Durand and
Michael G. B. Blum and
Olivier François Prediction of group patterns in social
mammals based on a coalescent model . . 262--270
Christian J. Michel Evolution probabilities and phylogenetic
distance of dinucleotides . . . . . . . 271--277
Jan Fuhrmann and
Josef Käs and
Angela Stevens Initiation of cytoskeletal asymmetry for
cell polarization and movement . . . . . 278--288
Hisashi Ohtsuki and
Pedro Bordalo and
Martin A. Nowak The one-third law of evolutionary
dynamics . . . . . . . . . . . . . . . . 289--295
T. Ishikawa and
T. J. Pedley and
T. Yamaguchi Orientational relaxation time of
bottom-heavy squirmers in a semi-dilute
suspension . . . . . . . . . . . . . . . 296--306
Enrique Burgos and
Horacio Ceva and
Roberto P. J. Perazzo and
Mariano Devoto and
Diego Medan and
Mart\'ìn Zimmermann and
Ana Mar\'ìa Delbue Why nestedness in mutualistic networks? 307--313
Jacques Demongeot and
Andrés Moreira A possible circular RNA at the origin of
life . . . . . . . . . . . . . . . . . . 314--324
Donald R. Forsdyke Molecular sex: The importance of base
composition rather than homology when
nucleic acids hybridize . . . . . . . . 325--330
Tsvi Tlusty A model for the emergence of the genetic
code as a transition in a noisy
information channel . . . . . . . . . . 331--342
R. Miftahof and
N. R. Akhmadeev Neurochemical bases of visceral
nociception: Mathematical model . . . . 343--360
Kevin J. Kesseler and
William K. Kaufmann and
Joyce T. Reardon and
Timothy C. Elston and
Aziz Sancar A mathematical model for human
nucleotide excision repair: Damage
recognition by random order assembly and
kinetic proofreading . . . . . . . . . . 361--375
Armin O. Schmitt and
Johannes Schuchhardt and
Arne Ludwig and
Gudrun A. Brockmann Protein evolution within and between
species . . . . . . . . . . . . . . . . 376--383
Anna Q. Cai and
Kerry A. Landman and
Barry D. Hughes and
Colleen M. Witt T cell development in the thymus: From
periodic seeding to constant output . . 384--394
Hugo A. van den Berg and
Linda Wooldridge and
Bruno Laugel and
Andrew K. Sewell Coreceptor CD8-driven modulation of T
cell antigen receptor specificity . . . 395--408
Mark Bebbington and
Chin-Diew Lai and
Ricardas Zitikis Addendum to ``Modeling human mortality
using mixtures of bathtub shaped failure
distributions'': Journal of Theoretical
Biology \bf 245 (2007) 528--538 . . . . 409--410
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 181--410 (21 November 2007) . . . ??
David T. Kysela and
Paul E. Turner Optimal bacteriophage mutation rates for
phage therapy . . . . . . . . . . . . . 411--421
Emma Hart and
Hugues Bersini and
Francisco C. Santos How affinity influences tolerance in an
idiotypic network . . . . . . . . . . . 422--436
Richard J. Hall and
Alan Hastings Minimizing invader impacts: Striking the
right balance between removal and
restoration . . . . . . . . . . . . . . 437--444
Josef Jäckle The causal theory of the resting
potential of cells . . . . . . . . . . . 445--463
Gottfried Sachs Tail effects on yaw stability in birds 464--472
Hsin-Hue Wu and
How-Jing Lee and
Shwu-Bin Horng and
Ludek Berec Modeling population dynamics of two
cockroach species: Effects of the
circadian clock, interspecific
competition and pest control . . . . . . 473--486
Erika M. C. D'Agata and
Pierre Magal and
Damien Olivier and
Shigui Ruan and
Glenn F. Webb Modeling antibiotic resistance in
hospitals: The impact of minimizing
treatment duration . . . . . . . . . . . 487--499
M. N. Jabbour and
G. T. Matioli Homotopic dynamics of telomeric loops in
mammalian chromatids . . . . . . . . . . 500--502
D. Holcman and
V. Kasatkin and
A. Prochiantz Modeling homeoprotein intercellular
transfer unveils a parsimonious
mechanism for gradient and boundary
formation in early brain development . . 503--517
Rainer K. Sachs and
Igor Shuryak and
David Brenner and
Hatim Fakir and
Lynn Hlatky and
Philip Hahnfeldt Second cancers after fractionated
radiotherapy: Stochastic population
dynamics effects . . . . . . . . . . . . 518--531
Zhiping Wang and
Xianning Liu A chronic viral infection model with
immune impairment . . . . . . . . . . . 532--542
Greg Lemon and
Sarah L. Waters and
Felicity R. A. J. Rose and
John R. King Mathematical modelling of human
mesenchymal stem cell proliferation and
differentiation inside artificial porous
scaffolds . . . . . . . . . . . . . . . 543--553
Ferdi L. Hellweger and
Ehsan Kianirad Individual-based modeling of
phytoplankton: Evaluating approaches for
applying the cell quota model . . . . . 554--565
Ping Xie Model for RuvAB-mediated branch
migration of Holliday junctions . . . . 566--573
Stephen Cooper and
Kerby Shedden Microarrays and the relationship of mRNA
variation to protein variation during
the cell cycle . . . . . . . . . . . . . 574--581
Stephen T. Abedon and
Rachel R. Culler Optimizing bacteriophage plaque
fecundity . . . . . . . . . . . . . . . 582--592
Mohammad Bannayan and
Kazuhiko Kobayashi and
Hassan Marashi and
Gerrit Hoogenboom Gene-based modelling for rice: An
opportunity to enhance the simulation of
rice growth and development? . . . . . . 593--605
Christina Pawlowitsch Finite populations choose an optimal
language . . . . . . . . . . . . . . . . 606--616
Arne Traulsen and
Yoh Iwasa and
Martin A. Nowak The fastest evolutionary trajectory . . 617--623
Justin P. Blumenstiel Sperm competition can drive a
male-biased mutation rate . . . . . . . 624--632
Roberto Antonio Clemente On West, Brown and Enquist's metabolism
allometry model . . . . . . . . . . . . 633--637
H. Martin Schaefer and
Kevin S. Gould Modelling the evolution of leaf
colouration with binary assumptions is
barking up the wrong tree . . . . . . . 638--639
Anonymous Editorial Board . . . . . . . . . . . . CO2
Anonymous Pages 411--640 (7 December 2007) . . . . ??
Lloyd Demetrius and
Volker Matthias Gundlach and
Martin Ziehe Darwinian fitness and the intensity of
natural selection: Studies in
sensitivity analysis . . . . . . . . . . 641--653
Daniel D. Wiegmann and
Lisa M. Angeloni Mate choice and uncertainty in the
decision process . . . . . . . . . . . . 654--666
Matthijs van Veelen and
Astrid Hopfensitz In love and war: Altruism, norm
formation, and two different types of
group selection . . . . . . . . . . . . 667--680
Xiao-Qin Qi and
Jie Wen and
Zhao-Hui Qi New 3D graphical representation of DNA
sequence based on dual nucleotides . . . 681--690
Mark G. Poolman and
Cristiana Sebu and
Michael K. Pidcock and
David A. Fell Modular decomposition of metabolic
systems via null-space analysis . . . . 691--705
Eben Kenah and
James M. Robins Network-based analysis of stochastic SIR
epidemic models with random and
proportionate mixing . . . . . . . . . . 706--722
Anastasios Matzavinos and
Hans G. Othmer A stochastic analysis of actin
polymerization in the presence of
twinfilin and gelsolin . . . . . . . . . 723--736
Arho Virkki and
Olli Polo and
Mats Gyllenberg and
Tero Aittokallio Can carotid body perfusion act as a
respiratory controller? . . . . . . . . 737--748
Kai Willadsen and
Janet Wiles Robustness and state-space structure of
Boolean gene regulatory models . . . . . 749--765
Natalia L. Komarova Viral reproductive strategies: How can
lytic viruses be evolutionarily
competitive? . . . . . . . . . . . . . . 766--784
Samad Jahandideh and
Amir Sabet Sarvestani and
Parviz Abdolmaleki and
Mina Jahandideh and
Mahdyar Barfeie $ \gamma $-Turn types prediction in
proteins using the support vector
machines . . . . . . . . . . . . . . . . 785--790
Steinar Engen Heterogeneous communities with lognormal
species abundance distribution:
Species-area curves and sustainability 791--803
Jessica Purcell and
Anders Brodin Factors influencing route choice by
avian migrants: a dynamic programming
model of Pacific brant migration . . . . 804--816
Björn F. C. Kafsack and
Vern B. Carruthers and
Fernando J. Pineda Kinetic modeling of Toxoplasma gondii
invasion . . . . . . . . . . . . . . . . 817--825
R. Randal Bollinger and
Andrew S. Barbas and
Errol L. Bush and
Shu S. Lin and
William Parker Biofilms in the large bowel suggest an
apparent function of the human vermiform
appendix . . . . . . . . . . . . . . . . 826--831
Anonymous Author Index . . . . . . . . . . . . . . 832--834
Anonymous Subject Index . . . . . . . . . . . . . 835--843
Anonymous Editorial Board . . . . . . . . . . . . CO2
Anonymous Pages 641--844 (21 December 2007) . . . ??
B. Addison-Smith and
D. L. S. McElwain and
P. K. Maini A simple mechanistic model of sprout
spacing in tumour-associated
angiogenesis . . . . . . . . . . . . . . 1--15
P. P. Delsanto and
C. A. Condat and
N. Pugno and
A. S. Gliozzi and
M. Griffa A multilevel approach to cancer growth
modeling . . . . . . . . . . . . . . . . 16--24
Katie Bentley and
Holger Gerhardt and
Paul A. Bates Agent-based simulation of notch-mediated
tip cell selection in angiogenic sprout
initialisation . . . . . . . . . . . . . 25--36
Andreas Bohn and
Jordi García-Ojalvo Synchronization of coupled biological
oscillators under spatially
heterogeneous environmental forcing . . 37--47
Gerhard Schlosser and
Günter P. Wagner A simple model of co-evolutionary
dynamics caused by epistatic selection 48--65
Mia T. Borup and
Ala Trusina and
Anna M. C. Andersson Aging mechanism as the ``down side'' of
adaptation: a network approach . . . . . 66--74
Dong Kong and
Baohua Ji and
Lanhong Dai Nonlinear mechanical modeling of cell
adhesion . . . . . . . . . . . . . . . . 75--84
Michael M. Walker A model for encoding of magnetic field
intensity by magnetite-based
magnetoreceptor cells . . . . . . . . . 85--91
Y. Lecarpentier and
X. Krokidis and
P. Martin and
T. Pineau and
J.-L. Hébert and
J. Quillard and
M. Cortes-Morichetti and
C. Coirault Increased entropy production in
diaphragm muscle of PPAR $ \alpha $
knockout mice . . . . . . . . . . . . . 92--102
Shrabani Sen and
Syed Shahed Riaz and
Deb Shankar Ray Temperature dependence and temperature
compensation of kinetics of chemical
oscillations; Belousov--Zhabotinskii
reaction, glycolysis and circadian
rhythms . . . . . . . . . . . . . . . . 103--112
Frederic Guichard and
Robin Steenweg Intrinsic and extrinsic causes of
spatial variability across scales in a
metacommunity . . . . . . . . . . . . . 113--124
Andreas A. Linninger and
Mahadevabharath R. Somayaji and
Megan Mekarski and
Libin Zhang Prediction of convection-enhanced drug
delivery to the human brain . . . . . . 125--138
Xiufen Zou and
Tao Peng and
Zishu Pan Modeling specificity in the yeast MAPK
signaling networks . . . . . . . . . . . 139--155
Emmanuele De Vendittis and
Immacolata Castellano and
Roberta Cotugno and
Maria Rosaria Ruocco and
Gennaro Raimo and
Mariorosario Masullo Adaptation of model proteins from cold
to hot environments involves continuous
and small adjustments of average
parameters related to amino acid
composition . . . . . . . . . . . . . . 156--171
M. R. Bennett and
L. Farnell and
W. G. Gibson Origins of blood volume change due to
glutamatergic synaptic activity at
astrocytes abutting on arteriolar smooth
muscle cells . . . . . . . . . . . . . . 172--185
Tong-Liang Zhang and
Yong-Sheng Ding and
Kuo-Chen Chou Prediction protein structural classes
with pseudo-amino acid composition:
Approximate entropy and hydrophobicity
pattern . . . . . . . . . . . . . . . . 186--193
J. A. C. Humphrey and
E. S. Dykes Thermal energy conduction in a honey bee
comb due to cell-heating bees . . . . . 194--208
Mohsen Sabouri-Ghomi and
Andrea Ciliberto and
Sandip Kar and
Bela Novak and
John J. Tyson Antagonism and bistability in protein
interaction networks . . . . . . . . . . 209--218
Attila Tóth and
Ethel Queralt and
Frank Uhlmann and
Béla Novák Erratum to ``Mitotic exit in two
dimensions'': [J. Theor. Biol. \bf 248
(2007) 560--573] . . . . . . . . . . . . 219--219
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 1--220 (7 January 2008) . . . . . ??
Sávio Torres de Farias and
Romeu Cardoso Guimarães Aminoacyl-tRNA synthetase classes and
groups in prokaryotes . . . . . . . . . 221--229
Tomohiro Matsuoka and
Sohei Gomi and
Ryuzo Shingai Simulation of \bionameC. elegans
thermotactic behavior in a linear
thermal gradient using a simple
phenomenological motility model . . . . 230--243
Chih-Horng Kuo and
Vanessa Corby-Harris and
Daniel E. L. Promislow The unavoidable costs and unexpected
benefits of parasitism: Population and
metapopulation models of
parasite-mediated competition . . . . . 244--256
M. Welter and
K. Bartha and
H. Rieger Emergent vascular network
inhomogeneities and resulting blood flow
patterns in a growing tumor . . . . . . 257--280
Anne Deredec and
Ludek Berec and
David S. Boukal and
Franck Courchamp Are non-sexual models appropriate for
predicting the impact of virus-vectored
immunocontraception? . . . . . . . . . . 281--290
Sourav Rakshit and
G. K. Ananthasuresh An amino acid map of inter-residue
contact energies using metric
multi-dimensional scaling . . . . . . . 291--297
Nicole Radde and
Jutta Gebert and
Ulrich Faigle and
Rainer Schrader and
Karin Schnetz Modeling feedback loops in the
H-NS-mediated regulation of the
\bionameEscherichia coli bgl operon . . 298--306
Atsushi Mochizuki Structure of regulatory networks and
diversity of gene expression patterns 307--321
Fabien Crauste and
Laurent Pujo-Menjouet and
Stéphane Génieys and
Clément Molina and
Olivier Gandrillon Adding self-renewal in committed
erythroid progenitors improves the
biological relevance of a mathematical
model of erythropoiesis . . . . . . . . 322--338
Sharon R. Bullimore and
J. Maxwell Donelan Criteria for dynamic similarity in
bouncing gaits . . . . . . . . . . . . . 339--348
Yi Lu and
Stephen J. Freeland A quantitative investigation of the
chemical space surrounding amino acid
alphabet formation . . . . . . . . . . . 349--361
Guolian Kang and
Weihua Yue and
Jifeng Zhang and
Yuehua Cui and
Yijun Zuo and
Dai Zhang An entropy-based approach for testing
genetic epistasis underlying complex
diseases . . . . . . . . . . . . . . . . 362--374
Tailei Zhang and
Zhidong Teng An SIRVS epidemic model with pulse
vaccination strategy . . . . . . . . . . 375--381
Jun Wang and
Xiaoqi Zheng Comparison of protein secondary
structures based on backbone dihedral
angles . . . . . . . . . . . . . . . . . 382--387
Frans L. Roes A note on ants and aphids . . . . . . . 388--388
Anonymous Editorial Board . . . . . . . . . . . . CO2
Anonymous Pages 221--388 (21 January 2008) . . . . ??
Daniel V. Guebel and
Néstor V. Torres A computer model of oxygen dynamics in
human colon mucosa: Implications in
normal physiology and early tumor
development . . . . . . . . . . . . . . 389--409
Adi Livnat and
Nicholas Pippenger Systematic mistakes are likely in
bounded optimal decision-making systems 410--423
E. Casellas and
J. Gautrais and
R. Fournier and
S. Blanco and
M. Combe and
V. Fourcassié and
G. Theraulaz and
C. Jost From individual to collective
displacements in heterogeneous
environments . . . . . . . . . . . . . . 424--434
Graeme D. Ruxton and
Guy Beauchamp The application of genetic algorithms in
behavioural ecology, illustrated with a
model of anti-predator vigilance . . . . 435--448
A. E. D'Orazio and
T. A. Waite Incomplete division of labor:
Error-prone multitaskers coexist with
specialists . . . . . . . . . . . . . . 449--460
Yun He and
Sanbo Qin and
Xian-Ming Pan A novel procedure for identification of
the folding/unfolding patterns of
dimeric proteins . . . . . . . . . . . . 461--467
M. Andrecut and
D. Cloud and
S. A. Kauffman Monte Carlo simulation of a simple gene
network yields new evolutionary insights 468--474
Raúl Jiménez and
Haydee Lugo and
José A. Cuesta and
Angel Sánchez Emergence and resilience of cooperation
in the spatial prisoner's dilemma via a
reward mechanism . . . . . . . . . . . . 475--483
Emma Y. Jin and
Jing Qin and
Christian M. Reidys Neutral networks of sequence to shape
maps . . . . . . . . . . . . . . . . . . 484--497
Andrew Hoyle and
Roger G. Bowers and
Andrew White and
Michael Boots The influence of trade-off shape on
evolutionary behaviour in classical
ecological scenarios . . . . . . . . . . 498--511
George Czerlinski and
Tjalling Ypma Mechanisms of telomerase-dimer catalysis 512--523
Lutz Fromhage and
John M. McNamara and
Alasdair I. Houston A model for the evolutionary maintenance
of monogyny in spiders . . . . . . . . . 524--531
Jozef Janda and
Gernot Geginat A deterministic model for the processing
and presentation of bacteria-derived
antigenic peptides . . . . . . . . . . . 532--546
Emma Y. Jin and
Christian M. Reidys Central and local limit theorems for RNA
structures . . . . . . . . . . . . . . . 547--559
Josep Sardanyés and
Santiago F. Elena and
Ricard V. Solé Simple quasispecies models for the
survival-of-the-flattest effect: The
role of space . . . . . . . . . . . . . 560--568
Thomas Caraco and
Ing-Nang Wang Free-living pathogens: Life-history
constraints and strain competition . . . 569--579
Edelmira Valero and
Manuela García-Moreno and
Jesualdo Masiá and
María-José García-Meseguer and
Ramón Varón Corrigendum to ``Kinetic behaviour of
proenzymes activation in the presence of
different inhibitors for both activating
and activated enzymes'': [J. Theor.
Biol. \bf 245 (2007) 175--192] . . . . . 580--580
Anonymous Editorial Board . . . . . . . . . . . . CO2
Anonymous Pages 389--580 (7 February 2008) . . . . ??
D.-E. Bettendorff-Bakman and
P. Schmid and
P. P. Lunkenheimer and
P. Niederer Diastolic ventricular aspiration: a
mechanism supporting the rapid filling
phase of the human ventricles . . . . . 581--592
David Fouchet and
Jean-Sébastien Guitton and
Stéphane Marchandeau and
Dominique Pontier Impact of myxomatosis in relation to
local persistence in wild rabbit
populations: The role of waning immunity
and the reproductive period . . . . . . 593--605
K. Qu and
P. Ortoleva Understanding stem cell differentiation
through self-organization theory . . . . 606--620
Noriaki Okazaki and
Ryoji Asano and
Takashi Kinoshita and
Hiroshi Chuman Simple computational models of type
I/type II cells in Fas signaling-induced
apoptosis . . . . . . . . . . . . . . . 621--633
Philipp Langer and
Martin A. Nowak and
Christoph Hauert Spatial invasion of cooperation . . . . 634--641
Bert J. Lao and
Daniel T. Kamei Investigation of cellular movement in
the prostate epithelium using an
agent-based model . . . . . . . . . . . 642--654
Remila L. Martis and
Sameer Kumar Singh and
M. Michael Gromiha and
C. Santhosh Role of cation-$ \pi $ interactions in
single chain `all-alpha' proteins . . . 655--662
P. A. Robinson and
H. Wu and
J. W. Kim Neural rate equations for bursting
dynamics derived from conductance-based
equations . . . . . . . . . . . . . . . 663--672
Stephen Tennenbaum Simple criteria for finding (nearly)
optimal vaccination strategies . . . . . 673--683
A. Gerisch and
M. A. J. Chaplain Mathematical modelling of cancer cell
invasion of tissue: Local and non-local
models and the effect of adhesion . . . 684--704
P. Gerlee and
A. R. A. Anderson A hybrid cellular automaton model of
clonal evolution in cancer: The
emergence of the glycolytic phenotype 705--722
Jorge M. Pacheco and
Arne Traulsen and
Hisashi Ohtsuki and
Martin A. Nowak Repeated games and direct reciprocity
under active linking . . . . . . . . . . 723--731
Thomas Riggs and
Adrienne Walts and
Nicolas Perry and
Laura Bickle and
Jennifer N. Lynch and
Amy Myers and
Joanne Flynn and
Jennifer J. Linderman and
Mark J. Miller and
Denise E. Kirschner A comparison of random vs.
chemotaxis-driven contacts of T cells
with dendritic cells during repertoire
scanning . . . . . . . . . . . . . . . . 732--751
Kevin Denny Big and tall parents do not have more
sons . . . . . . . . . . . . . . . . . . 752--753
Anonymous Author Index . . . . . . . . . . . . . . 754--756
Anonymous Subject Index . . . . . . . . . . . . . 757--761
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 581--762 (21 February 2008) . . . ??
C. M. Jonker and
J. L. Snoep and
J. Treur and
H. V. Westerhoff and
W. C. A. Wijngaards BDI-modelling of complex intracellular
dynamics . . . . . . . . . . . . . . . . 1--23
Leah R. Johnson Microcolony and biofilm formation as a
survival strategy for bacteria . . . . . 24--34
Mario Biondini Allometric scaling laws for water uptake
by plant roots . . . . . . . . . . . . . 35--59
Sahraoui Chaieb and
Sárka Málková and
Jyotsana Lal Why the wrinkling transition in
partially polymerized membranes is not
universal? Fractal-multifractal
hierarchy . . . . . . . . . . . . . . . 60--67
Jérôme Gastaldo and
Muriel Viau and
Michael Bouchot and
Aurélie Joubert and
Anne-Marie Charvet and
Nicolas Foray Induction and repair rate of DNA damage:
a unified model for describing effects
of external and internal irradiation and
contamination with heavy metals . . . . 68--81
Mateusz Pluci\'nski and
Szymon Pluci\'nski and
Ignacio Rodríguez-Iturbe Consequences of the fractal architecture
of trees on their structural measures 82--92
Andrey V. Chernyshev and
Peter A. Tarasov and
Konstantin A. Semianov and
Vyacheslav M. Nekrasov and
Alfons G. Hoekstra and
Valeri P. Maltsev Erythrocyte lysis in isotonic solution
of ammonium chloride: Theoretical
modeling and experimental verification 93--107
Christian Guill and
Barbara Drossel Emergence of complexity in evolving
niche-model food webs . . . . . . . . . 108--120
Ira Aviram and
Avinoam Rabinovitch Dynamical types of bacteria and
bacteriophages interaction: Shielding by
debris . . . . . . . . . . . . . . . . . 121--136
Liesbet Geris and
Alf Gerisch and
Jos Vander Sloten and
Rüdiger Weiner and
Hans Van Oosterwyck Angiogenesis in bone fracture healing: a
bioregulatory model . . . . . . . . . . 137--158
Liwei Liu and
Tianming Wang Comparison of TOPS strings based on LZ
complexity . . . . . . . . . . . . . . . 159--166
Christina Kuttler and
Burkhard A. Hense Interplay of two quorum sensing
regulation systems of Vibrio fischeri 167--180
Naoki Masuda Oscillatory dynamics in evolutionary
games are suppressed by heterogeneous
adaptation rates of players . . . . . . 181--189
Matthew S. Grober and
Edmund W. Rodgers The evolution of hermaphroditism . . . . 190--192
Lena Edlund and
Evelyn Korn Reply to ``The evolution of
hermaphroditism'' by Matthew S. Grober
and Edmund W. Rodgers . . . . . . . . . 193--193
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 1--194 (7 March 2008) . . . . . . ??
Uwe Pliquett and
Ch. Gusbeth and
Richard Nuccitelli A propagating heat wave model of skin
electroporation . . . . . . . . . . . . 195--201
M. A. Dahlem and
F. M. Schneider and
E. Schöll Efficient control of transient wave
forms to prevent spreading
depolarizations . . . . . . . . . . . . 202--209
Stephan Peischl and
Reinhard Bürger Evolution of dominance under
frequency-dependent intraspecific
competition . . . . . . . . . . . . . . 210--226
Robert J. Smith Explicitly accounting for antiretroviral
drug uptake in theoretical HIV models
predicts long-term failure of
protease-only therapy . . . . . . . . . 227--237
Ping Yan Separate roles of the latent and
infectious periods in shaping the
relation between the basic reproduction
number and the intrinsic growth rate of
infectious disease outbreaks . . . . . . 238--252
J. A. Cuesta and
R. Jiménez and
H. Lugo and
A. Sánchez The shared reward dilemma . . . . . . . 253--263
Hongya Zhao and
Alan Wee-Chung Liew and
Xudong Xie and
Hong Yan A new geometric biclustering algorithm
based on the Hough transform for
analysis of large-scale microarray data 264--274
Micha\l Brylinski and
Leszek Konieczny and
Andrzej Kononowicz and
Irena Roterman Conservative secondary structure motifs
already present in early-stage folding
(in silico) as found in serpines family 275--285
Beáta Faller and
Fabio Pardi and
Mike Steel Distribution of phylogenetic diversity
under random extinction . . . . . . . . 286--296
Raluca Apostu and
Michael C. Mackey Understanding cyclical thrombocytopenia:
a mathematical modeling approach . . . . 297--316
Tewfik Mahdjoub and
Frédéric Menu Prolonged diapause: a trait increasing
invasion speed? . . . . . . . . . . . . 317--330
Bengt Nölting and
Neema Salimi and
Ulrich Guth Protein folding forces . . . . . . . . . 331--347
Hedia Fgaier and
Balazs Feher and
Robin C. McKellar and
Hermann J. Eberl Predictive modeling of siderphore
production by Pseudomonas fluorescens
under iron limitation . . . . . . . . . 348--362
Reiko J. Tanaka and
Hidenori Kimura Mathematical classification of
regulatory logics for compound
environmental changes . . . . . . . . . 363--379
Leila Pirhaji and
Mehdi Kargar and
Armita Sheari and
Hadi Poormohammadi and
Mehdi Sadeghi and
Hamid Pezeshk and
Changiz Eslahchi The performances of the chi-square test
and complexity measures for signal
recognition in biological sequences . . 380--387
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 195--388 (21 March 2008) . . . . . ??
Roderick C. Dewar and
Annabel Porté Statistical mechanics unifies different
ecological patterns . . . . . . . . . . 389--403
J. Paul Cunningham and
Stuart A. West How host plant variability influences
the advantages to learning: a
theoretical model for oviposition
behaviour in Lepidoptera . . . . . . . . 404--410
Enrico Grazi and
Sara Pozzati Protein osmotic pressure modulates actin
filament length distribution . . . . . . 411--420
Alan C. Newell and
Patrick D. Shipman and
Zhiying Sun Phyllotaxis: Cooperation and competition
between mechanical and biochemical
processes . . . . . . . . . . . . . . . 421--439
Bhalchandra D. Thatte and
Mike Steel Reconstructing pedigrees: a stochastic
perspective . . . . . . . . . . . . . . 440--449
Vittoria Colizza and
Alessandro Vespignani Epidemic modeling in metapopulation
systems with heterogeneous coupling
pattern: Theory and simulations . . . . 450--467
J. Li and
C. E. Petit-Jetté and
D. Gohore Bi and
F. Fenneteau and
J. R. E. del Castillo and
F. Nekka Assessing pharmacokinetic variability
directly induced by drug intake
behaviour through development of a
feeding behaviour-pharmacokinetic model 468--479
Alona Ben-Tal and
Jeffrey C. Smith A model for control of breathing in
mammals: Coupling neural dynamics to
peripheral gas exchange and transport 480--497
J. M. Garc\'ìa-Manso and
J. M. Mart\'ìn-González and
M. E. Da Silva-Grigoletto and
D. Vaamonde and
P. Benito and
J. Calderón Male powerlifting performance described
from the viewpoint of complex systems 498--508
Aurélien Gautreau and
Alain Barrat and
Marc Barthélemy Global disease spread: Statistics and
estimation of arrival times . . . . . . 509--522
Jaeyeon Kim and
Gerald M. Saidel and
Satish C. Kalhan A computational model of adipose tissue
metabolism: Evidence for intracellular
compartmentation and differential
activation of lipases . . . . . . . . . 523--540
Utkala Mohanty and
Narendra M. Dixit Mechanism-based model of the
pharmacokinetics of enfuvirtide, an HIV
fusion inhibitor . . . . . . . . . . . . 541--551
Ivan V. Surovtsev and
Jeffrey J. Morgan and
Paul A. Lindahl Corrigendum to ``Whole-cell modeling
framework in which biochemical dynamics
impact aspects of cellular geometry''
[J. Theor. Biol. \bf 244 (2007)
154--166] . . . . . . . . . . . . . . . 552--552
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 389--552 (7 April 2008) . . . . . ??
Maxim Lavrentovich and
Sheryl Hemkin A mathematical model of spontaneous
calcium(II) oscillations in astrocytes 553--560
Christopher J. Brinkerhoff and
Ji Sun Choi and
Jennifer J. Linderman Diffusion-limited reactions in G-protein
activation: Unexpected consequences of
antagonist and agonist competition . . . 561--569
Graham R. S. Ritchie and
Simon Kirby and
David J. C. Hawkey Song learning as an indicator mechanism:
Modelling the developmental stress
hypothesis . . . . . . . . . . . . . . . 570--583
Emina Sudar and
Jelena Velebit and
Zoran Gluvic and
Zorica Zakula and
Emilija Lazic and
Ljiljana Vuksanovic-Topic and
Biljana Putnikovic and
Aleksandar Neskovic and
Esma R. Isenovic Hypothetical mechanism of sodium pump
regulation by estradiol under primary
hypertension . . . . . . . . . . . . . . 584--592
Andrew Morozov and
Bai-Lian Li Abundance patterns in multi-species
communities exposed to habitat
destruction . . . . . . . . . . . . . . 593--605
David W. Redding and
Klaas Hartmann and
Aki Mimoto and
Drago Bokal and
Matt DeVos and
Arne Ò. Mooers Evolutionarily distinctive species often
capture more phylogenetic diversity than
expected . . . . . . . . . . . . . . . . 606--615
Elsje Pienaar and
Hendrik J. Viljoen The tri-frame model . . . . . . . . . . 616--627
Matthew Piazza and
Xiao-Jiang Feng and
Joshua D. Rabinowitz and
Herschel Rabitz Diverse metabolic model parameters
generate similar methionine cycle
dynamics . . . . . . . . . . . . . . . . 628--639
John L. Locke Cost and complexity: Selection for
speech and language . . . . . . . . . . 640--652
J. McDonald-Gibson and
J. G. Dyke and
E. A. Di Paolo and
I. R. Harvey Environmental regulation can arise under
minimal assumptions . . . . . . . . . . 653--666
John J. Welch and
David Waxman Calculating independent contrasts for
the comparative study of substitution
rates . . . . . . . . . . . . . . . . . 667--678
R. N. Bearon and
D. Grünbaum From individual behaviour to population
models: a case study using swimming
algae . . . . . . . . . . . . . . . . . 679--697
Hisashi Ohtsuki and
Martin A. Nowak Evolutionary stability on graphs . . . . 698--707
Anonymous Author Index . . . . . . . . . . . . . . 708--710
Anonymous Subject Index . . . . . . . . . . . . . 711--716
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 553--716 (21 April 2008) . . . . . ??
C. Tristan Stayton Is convergence surprising? An
examination of the frequency of
convergence in simulated datasets . . . 1--14
K. Veluraja and
Arunachalam N. Seethalakshmi Dynamics of sialyl Lewis a in aqueous
solution and prediction of the structure
of the sialyl Lewis a -SelectinE complex 15--23
J. Christian J. Ray and
Jian Wang and
John Chan and
Denise E. Kirschner The timing of TNF and IFN-$ \gamma $
signaling affects macrophage activation
strategies during \bionameMycobacterium
tuberculosis infection . . . . . . . . . 24--38
Julián Simón López-Villalta A metabolic view of the
diversity-stability relationship . . . . 39--42
F. Bartumeus and
J. Catalan and
G. M. Viswanathan and
E. P. Raposo and
M. G. E. da Luz The influence of turning angles on the
success of non-oriented animal searches 43--55
Clara Prats and
Antoni Giró and
Jordi Ferrer and
Daniel López and
Josep Vives-Rego Analysis and IbM simulation of the
stages in bacterial lag phase: Basis for
an updated definition . . . . . . . . . 56--68
Nathan D. Dees and
Sonya Bahar and
Ricardo Garcia and
Frank Moss Patch exploitation in two dimensions:
From Daphnia to simulated foragers . . . 69--76
Bernhard Voelkl and
Ronald Noë The influence of social structure on the
propagation of social information in
artificial primate groups: a graph-based
simulation approach . . . . . . . . . . 77--86
Tsutomu Matsuoka and
Hiromi Seno Ecological balance in the native
population dynamics may cause the
paradox of pest control with harvesting 87--97
G. Mitchell and
J. P. Bobbitt and
S. Devries Cerebral perfusion pressure in giraffe:
Modelling the effects of head-raising
and -lowering . . . . . . . . . . . . . 98--108
Zeljko Bajzer and
Thomas Carr and
Kresimir Josi\'c and
Stephen J. Russell and
David Dingli Modeling of cancer virotherapy with
recombinant measles viruses . . . . . . 109--122
M. R. Bennett and
L. Farnell and
W. G. Gibson Origins of the BOLD changes due to
synaptic activity at astrocytes abutting
arteriolar smooth muscle . . . . . . . . 123--130
Shuji Ishihara and
Tatsuo Shibata Mutual interaction in network motifs
robustly sharpens gene expression in
developmental processes . . . . . . . . 131--144
Yuchen Yang and
Erwin Tantoso and
Kuo-Bin Li Remote protein homology detection using
recurrence quantification analysis and
amino acid physicochemical properties 145--154
Timothy C. Reluga and
Jan Medlock and
Alan S. Perelson Backward bifurcations and multiple
equilibria in epidemic models with
structured immunity . . . . . . . . . . 155--165
M. Sato and
D. Waxman Adaptation to slow environmental change,
with apparent anticipation of selection 166--172
Joseph Fass and
Chi Pak and
James Bamburg and
Alex Mogilner Stochastic simulation of actin dynamics
reveals the role of annealing and
fragmentation . . . . . . . . . . . . . 173--183
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 1--184 (7 May 2008) . . . . . . . ??
Eric Smith Thermodynamics of natural selection I:
Energy flow and the limits on
organization . . . . . . . . . . . . . . 185--197
Eric Smith Thermodynamics of natural selection II:
Chemical Carnot cycles . . . . . . . . . 198--212
Eric Smith Thermodynamics of natural selection III:
Landauer's principle in computation and
chemistry . . . . . . . . . . . . . . . 213--220
Rachata Muneepeerakul and
Enrico Bertuzzo and
Andrea Rinaldo and
Ignacio Rodriguez-Iturbe Patterns of vegetation biodiversity: The
roles of dispersal directionality and
river network structure . . . . . . . . 221--229
Hanna Isaksson and
Corrinus C. van Donkelaar and
Rik Huiskes and
Keita Ito A mechano-regulatory bone-healing model
incorporating cell-phenotype specific
activity . . . . . . . . . . . . . . . . 230--246
A. V. Melkikh and
M. I. Sutormina Model of active transport of ions in
cardiac cell . . . . . . . . . . . . . . 247--254
Filippo Gualla and
Paolo Cermelli and
Sergio Castellano Is there a role for amplifiers in sexual
selection? . . . . . . . . . . . . . . . 255--271
Max J. Kurz and
Melissa Scott-Pandorf and
Chris Arellano and
Diane Olsen and
Greg Whitaker The penguin waddling gait pattern has a
more consistent step width than step
length . . . . . . . . . . . . . . . . . 272--276
Yoshitaka Kamimura and
Jun Abe and
Hiroshi Ito The continuous public goods game and the
evolution of cooperative sex ratios . . 277--287
Bart Haegeman and
Rampal S. Etienne Relaxing the zero-sum assumption in
neutral biodiversity theory . . . . . . 288--294
Urszula Ledzewicz and
Heinz Schättler Optimal and suboptimal protocols for a
class of mathematical models of tumor
anti-angiogenesis . . . . . . . . . . . 295--312
Karin M. Leiderman and
Laura A. Miller and
Aaron L. Fogelson The effects of spatial inhomogeneities
on flow through the endothelial surface
layer . . . . . . . . . . . . . . . . . 313--325
Daniel A. M. M. Silvestre and
José F. Fontanari Package models and the information
crisis of prebiotic evolution . . . . . 326--337
Stephen J. Willson Reconstruction of certain phylogenetic
networks from the genomes at their
leaves . . . . . . . . . . . . . . . . . 338--349
Hao Lin The modified Mahalanobis Discriminant
for predicting outer membrane proteins
by using Chou's pseudo amino acid
composition . . . . . . . . . . . . . . 350--356
K. M. ElSawy and
A. Taormina and
R. Twarock and
L. Vaughan Dynamical implications of Viral Tiling
Theory . . . . . . . . . . . . . . . . . 357--369
Lutz Brusch and
Andreas Deutsch The coherence of the vesicle theory of
protein secretion . . . . . . . . . . . 370--373
Stephen Rothman Reply to the letter of Professors Brusch
and Deutsch . . . . . . . . . . . . . . 374--375
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 185--376 (21 May 2008) . . . . . . ??
Athel Cornish-Bowden Reinhart Heinrich (1946--2006) . . . . . 377--378
Athel Cornish-Bowden Reinhart Heinrich (1946--2006): An
annotated bibliography . . . . . . . . . 379--387
Tom A. Rapoport Reinhart Heinrich --- an unassuming
intellectual giant . . . . . . . . . . . 388--390
Philip W. Kuchel and
David J. Philp Isotopomer subspaces as indicators of
metabolic-pathway structure . . . . . . 391--401
V. A. Selivanov and
P. de Atauri and
J. J. Centelles and
J. Cadefau and
J. Parra and
R. Cussó and
J. Carreras and
M. Cascante The changes in the energy metabolism of
human muscle induced by training . . . . 402--410
Athel Cornish-Bowden and
María Luz Cárdenas Self-organization at the origin of life 411--418
Marko Marhl and
Marko Gosak and
Matjaz Perc and
C. Jane Dixon and
Anne K. Green Spatio-temporal modelling explains the
effect of reduced plasma membrane
Ca$^{2+}$ efflux on intracellular
Ca$^{2+}$ oscillations in hepatocytes 419--426
Francisco Montero and
Juan Carlos Nuño and
Enrique Meléndez-Hevia and
Felix Olasagasti and
Sara Vázquez and
Federico Morán Stoichiometric analysis of
self-maintaining metabolisms . . . . . . 427--432
Jörn Behre and
Thomas Wilhelm and
Axel von Kamp and
Eytan Ruppin and
Stefan Schuster Structural robustness of metabolic
networks with respect to multiple
knockouts . . . . . . . . . . . . . . . 433--441
Susanne Gerber and
Heike Aßmus and
Barbara Bakker and
Edda Klipp Drug-efficacy depends on the inhibitor
type and the target position in a
metabolic network --- a systematic study 442--455
Carola Huthmacher and
Christoph Gille and
Hermann-Georg Holzhütter A computational analysis of protein
interactions in metabolic networks
reveals novel enzyme pairs potentially
involved in metabolic channeling . . . . 456--464
Anuradha Chauhan and
Stefan Legewie and
Pål O. Westermark and
Stephan Lorenzen and
Hanspeter Herzel A mesoscale model of G1/S phase
transition in liver regeneration . . . . 465--473
Ales Fajmut and
Milan Brumen MLC-kinase/phosphatase control of
Ca$^{2+}$ signal transduction in airway
smooth muscles . . . . . . . . . . . . . 474--481
Frank J. Bruggeman and
Ionela Oancea and
Roel van Driel Exploring the behavior of small
eukaryotic gene networks . . . . . . . . 482--487
F. B. du Preez and
R. Conradie and
G. P. Penkler and
K. Holm and
F. L. J. van Dooren and
J. L. Snoep A comparative analysis of kinetic models
of erythrocyte glycolysis . . . . . . . 488--496
Stefan Schuster and
Thomas Pfeiffer and
David A. Fell Is maximization of molar yield in
metabolic networks favoured by
evolution? . . . . . . . . . . . . . . . 497--504
Enrique Meléndez-Hevia and
Nancy Montero-Gómez and
Francisco Montero From prebiotic chemistry to cellular
metabolism --- the chemical evolution of
metabolism before Darwinian natural
selection . . . . . . . . . . . . . . . 505--519
Christine Nazaret and
Jean-Pierre Mazat An old paper revisited: ``A mathematical
model of carbohydrate energy metabolism.
Interaction between glycolysis, the
Krebs cycle and the H-transporting
shuttles at varying ATPases load'' by V.
V. Dynnik, R. Heinrich and E. E. Sel'kov 520--529
Thomas Handorf and
Nils Christian and
Oliver Ebenhöh and
Daniel Kahn An environmental perspective on
metabolism . . . . . . . . . . . . . . . 530--537
Douglas B. Kell and
Pedro Mendes The markup is the model: Reasoning about
systems biology models in the Semantic
Web era . . . . . . . . . . . . . . . . 538--543
Enrique Meléndez-Hevia Memories of Reinhart Heinrich . . . . . 544--545
Johann M. Rohwer and
Jan-Hendrik S. Hofmeyr Identifying and characterising
regulatory metabolites with generalised
supply-demand analysis . . . . . . . . . 546--554
Hans V. Westerhoff Signalling control strength . . . . . . 555--567
Jean-Pierre Mazat The first time I met Reinhart Heinrich
\ldots . . . . . . . . . . . . . . . . . 568--568
Fernando Ortega and
Marta Cascante and
Luis Acerenza Kinetic properties required for
sustained or paradoxical control of
metabolic fluxes under large changes in
enzyme activities . . . . . . . . . . . 569--573
Albert Goldbeter and
Olivier Pourquié Modeling the segmentation clock as a
network of coupled oscillations in the
Notch, Wnt and FGF signaling pathways 574--585
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Sebastian E. Ahnert and
Thomas M. A. Fink and
Andrei Zinovyev How much non-coding DNA do eukaryotes
require? . . . . . . . . . . . . . . . . 587--592
Alexander R. Small and
Adrian Neagu and
Franck Amyot and
Dan Sackett and
Victor Chernomordik and
Amir Gandjbakhche Spatial distribution of VEGF isoforms
and chemotactic signals in the vicinity
of a tumor . . . . . . . . . . . . . . . 593--607
Weijiu Liu and
Fusheng Tang Modeling a simplified regulatory system
of blood glucose at molecular levels . . 608--620
Michael J. Jeger and
Pieter J. Wijngaarden and
Rolf F. Hoekstra Adaptation to the cost of resistance in
a haploid clonally reproducing organism:
The role of mutation, migration and
selection . . . . . . . . . . . . . . . 621--632
M. Shapiro and
K. A. Duca and
K. Lee and
E. Delgado-Eckert and
J. Hawkins and
A. S. Jarrah and
R. Laubenbacher and
N. F. Polys and
V. Hadinoto and
D. A. Thorley-Lawson A virtual look at Epstein-Barr virus
infection: Simulation mechanism . . . . 633--648
Carlos A. Lugo and
Alan J. McKane The characteristics of species in an
evolutionary food web model . . . . . . 649--661
G. A. Lichtwark and
A. M. Wilson Optimal muscle fascicle length and
tendon stiffness for maximising
gastrocnemius efficiency during human
walking and running . . . . . . . . . . 662--673
Clément Calenge and
Mathieu Basille A general framework for the statistical
exploration of the ecological niche . . 674--685
Shinsuke Suzuki and
Eizo Akiyama Chaos, oscillation and the evolution of
indirect reciprocity in $n$-person games 686--693
Alan Grafen and
Marco Archetti Natural selection of altruism in
inelastic viscous homogeneous
populations . . . . . . . . . . . . . . 694--710
Sheng-Nan Wu and
Bing-Shuo Chen and
Ming-Wei Lin and
Yen-Chin Liu Contribution of slowly inactivating
potassium current to delayed firing of
action potentials in NG108-15 neuronal
cells: Experimental and theoretical
studies . . . . . . . . . . . . . . . . 711--721
Sohyun Hwang and
Seung-Woo Son and
Sang Cheol Kim and
Young Joo Kim and
Hawoong Jeong and
Doheon Lee A protein interaction network associated
with asthma . . . . . . . . . . . . . . 722--731
Shingo Iwami and
Yasuhiro Takeuchi and
Andrei Korobeinikov and
Xianning Liu Prevention of avian influenza epidemic:
What policy should we choose? . . . . . 732--741
Anas M. Ababneh and
Zaid Q. Ababneh and
Cathy C. Large DNA A-tracts bending: Polarization
effects on electrostatic interactions
across their minor groove . . . . . . . 742--749
Michael Stich and
Carlos Briones and
Susanna C. Manrubia On the structural repertoire of pools of
short, random RNA sequences . . . . . . 750--763
Theodore C. Goldsmith Aging, evolvability, and the individual
benefit requirement; medical
implications of aging theory
controversies . . . . . . . . . . . . . 764--768
Sven Kurbel Are extracellular osmolality and sodium
concentration determined by Donnan
effects of intracellular protein charges
and of pumped sodium? . . . . . . . . . 769--772
Samuli Helle Height, weight, body mass index and
offspring sex at birth in contemporary
Finnish women . . . . . . . . . . . . . 773--775
Anonymous Author Index . . . . . . . . . . . . . . 776--778
Anonymous Subject Index . . . . . . . . . . . . . 779--786
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 587--786 (21 June 2008) . . . . . ??
Xianning Liu and
Yasuhiro Takeuchi and
Shingo Iwami SVIR epidemic models with vaccination
strategies . . . . . . . . . . . . . . . 1--11
Wendi Wang and
Shinji Nakaoka and
Yasuhiro Takeuchi Invest conflicts of adult predators . . 12--23
Veronica Shi and
Abdessamad Tridane and
Yang Kuang A viral load-based cellular automata
approach to modeling HIV dynamics and
drug treatment . . . . . . . . . . . . . 24--35
Kaifa Wang and
Wendi Wang and
Shiping Song Dynamics of an HBV model with diffusion
and delay . . . . . . . . . . . . . . . 36--44
Ryota Horie An optimization framework of biological
dynamical systems . . . . . . . . . . . 45--54
Kazuki Kawachi and
Motohide Seki and
Hiraku Yoshida and
Yohei Otake and
Katsuhide Warashina and
Hiroshi Ueda A rumor transmission model with various
contact interactions . . . . . . . . . . 55--60
Sachi Yamaguchi and
Yoichi Yusa and
Shigeyuki Yamato and
Satoru Urano and
Satoshi Takahashi Mating group size and evolutionarily
stable pattern of sexuality in barnacles 61--73
Christian Cibert Are the local adjustments of the
relative spatial frequencies of the
dynein arms and the $ \beta $-tubulin
monomers involved in the regulation of
the ``9+2'' axoneme? . . . . . . . . . . 74--89
Jianbo Tong and
Shuling Liu and
Peng Zhou and
Bulan Wu and
Zhiliang Li A novel descriptor of amino acids and
its application in peptide QSAR . . . . 90--97
Raja Venkatasubramanian and
Michael A. Henson and
Neil S. Forbes Integrating cell-cycle progression, drug
penetration and energy metabolism to
identify improved cancer therapeutic
strategies . . . . . . . . . . . . . . . 98--117
Julien Arino and
Fred Brauer and
P. van den Driessche and
James Watmough and
Jianhong Wu A model for influenza with vaccination
and antiviral treatment . . . . . . . . 118--130
Gerhard Jäger Evolutionary stability conditions for
signaling games with costly signals . . 131--141
Andrew T. Sornborger and
Malcolm R. Adams The evolution of fidelity in sensory
systems . . . . . . . . . . . . . . . . 142--150
Takuyo Aita and
Yuzuru Husimi Fitting protein-folding free energy
landscape for a certain conformation to
an NK fitness landscape . . . . . . . . 151--161
Maria Christianou and
Giorgos D. Kokkoris Complexity does not affect stability in
feasible model communities . . . . . . . 162--169
George S. B. Williams and
Evan J. Molinelli and
Gregory D. Smith Modeling local and global intracellular
calcium responses mediated by diffusely
distributed inositol 1,4,5-trisphosphate
receptors . . . . . . . . . . . . . . . 170--188
James A. Roberts and
Peter A. Robinson Modeling absence seizure dynamics:
Implications for basic mechanisms and
measurement of thalamocortical and
corticothalamic latencies . . . . . . . 189--201
M. A. Ball and
G. A. Parker and
J. C. Chubb The evolution of complex life cycles
when parasite mortality is size- or
time-dependent . . . . . . . . . . . . . 202--214
Keith Slevin and
John Waterlow Theoretical analysis of the importance
of recycling in measurements of protein
turnover by constant infusion of a
labelled amino acid . . . . . . . . . . 215--219
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 1--220 (7 July 2008) . . . . . . . ??
Szabolcs Számadó and
Ferenc Szalai and
István Scheuring The effect of dispersal and
neighbourhood in games of cooperation 221--227
T. Garske and
C. J. Rhodes The effect of superspreading on epidemic
outbreak size distributions . . . . . . 228--237
Adam Kapela and
Anastasios Bezerianos and
Nikolaos M. Tsoukias A mathematical model of Ca$^{2+}$
dynamics in rat mesenteric smooth muscle
cell: Agonist and NO stimulation . . . . 238--260
Daijiro Okada and
Paul M. Bingham Human uniqueness-self-interest and
social cooperation . . . . . . . . . . . 261--270
Moxun Tang The mean and noise of stochastic gene
transcription . . . . . . . . . . . . . 271--280
Giulia Menconi and
Vieri Benci and
Marcello Buiatti Data compression and genomes: a
two-dimensional life domain map . . . . 281--288
Joydev Chattopadhyay and
Samrat Chatterjee and
Ezio Venturino Patchy agglomeration as a transition
from monospecies to recurrent plankton
blooms . . . . . . . . . . . . . . . . . 289--295
Jesús Gómez-Gardeñes and
Julia Poncela and
Luis Mario Floría and
Yamir Moreno Natural selection of cooperation and
degree hierarchy in heterogeneous
populations . . . . . . . . . . . . . . 296--301
A. Ennemoser and
N. Hausmann Regulation of human eye growth by the
energy density of the radiation in the
retina --- a biophysical theory in
ophthalmology . . . . . . . . . . . . . 302--309
Guang-Ya Zhang and
Bai-Shan Fang Predicting the cofactors of
oxidoreductases based on amino acid
composition distribution and Chou's
amphiphilic pseudo-amino acid
composition . . . . . . . . . . . . . . 310--315
Mauno Rönkkö and
Garry Wong Modeling the \bionameC. elegans nematode
and its environment using a particle
system . . . . . . . . . . . . . . . . . 316--322
Volkan Sevim and
Per Arne Rikvold Chaotic gene regulatory networks can be
robust against mutations and noise . . . 323--332
Matthew A. Neimark and
Angelos-Aristeidis Konstas and
Jae H. Choi and
Andrew F. Laine and
John Pile-Spellman Brain cooling maintenance with cooling
cap following induction with
intracarotid cold saline infusion: a
quantitative model . . . . . . . . . . . 333--344
William H. E. Day and
F. R. McMorris and
Mark Wilkinson Explosions and hot spots in supertree
methods . . . . . . . . . . . . . . . . 345--348
Robert C. Hilborn and
Jessie D. Erwin Stochastic coherence in an oscillatory
gene circuit model . . . . . . . . . . . 349--354
Dominique Chu The evolution of group-level pathogenic
traits . . . . . . . . . . . . . . . . . 355--362
Jens H. Kroeger and
Anja Geitmann and
Martin Grant Model for calcium dependent oscillatory
growth in pollen tubes . . . . . . . . . 363--374
Ashish Anand and
Ganesan Pugalenthi and
P. N. Suganthan Predicting protein structural class by
SVM with class-wise optimized features
and decision probabilities . . . . . . . 375--380
DongYoub Lee and
Anthony S. Wexler and
Michelle V. Fanucchi and
Charles G. Plopper Expiration rate drives human airway
design . . . . . . . . . . . . . . . . . 381--387
Chao Chen and
Li-Xuan Chen and
Xiao-Yong Zou and
Pei-Xiang Cai Predicting protein structural class
based on multi-features fusion . . . . . 388--392
Ning Du and
Jintu Fan and
Shuo Chen and
Yang Liu A hydraulic-photosynthetic model based
on extended HLH and its application to
Coast redwood (\bionameSequoia
sempervirens) . . . . . . . . . . . . . 393--400
William H. James Some comments on the paper of Grant
(2007) . . . . . . . . . . . . . . . . . 401--404
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 221--404 (21 July 2008) . . . . . ??
Philip J. Wallhead and
Adrian P. Martin and
Meric A. Srokosz Spatially implicit plankton population
models: Transient spatial variability 405--423
Ross S. Davidson and
Glenn Marion and
Michael R. Hutchings Effects of host social hierarchy on
disease persistence . . . . . . . . . . 424--433
C. M. Altaner and
M. C. Jarvis Modelling polymer interactions of the
`molecular Velcro' type in wood under
mechanical stress . . . . . . . . . . . 434--445
Murat Kasap and
Ali Sazci The comparison of VEGFR-1-binding domain
of VEGF-A with modelled VEGF-C sheds
light on receptor specificity . . . . . 446--451
Mikhail V. Ivanchenko and
Thomas Nowotny and
Allen I. Selverston and
Mikhail I. Rabinovich Pacemaker and network mechanisms of
rhythm generation: Cooperation and
competition . . . . . . . . . . . . . . 452--461
Sandip Roy and
James M. Krueger and
David M. Rector and
Yan Wan A network model for activity-dependent
sleep regulation . . . . . . . . . . . . 462--468
Jaromir S. Foltan tRNA genes and the genetic code . . . . 469--482
Jeffrey R. Groff and
Gregory D. Smith Calcium-dependent inactivation and the
dynamics of calcium puffs and sparks . . 483--499
Paul D. Williams Unhealthy herds: Some epidemiological
consequences of host heterogeneity in
predator-host-parasite systems . . . . . 500--507
Antonio Marín and
Xuhua Xia GC skew in protein-coding genes between
the leading and lagging strands in
bacterial genomes: New substitution
models incorporating strand bias . . . . 508--513
Vipin Srivastava and
D. J. Parker and
S. F. Edwards The nervous system might `orthogonalize'
to discriminate . . . . . . . . . . . . 514--517
Sang-Hee Lee and
Nan-Yao Su A simulation study of territory size
distribution of mangrove termites on
Atlantic coast of Panama . . . . . . . . 518--523
S. M. Wise and
J. S. Lowengrub and
H. B. Frieboes and
V. Cristini Three-dimensional multispecies nonlinear
tumor growth --- I: Model and numerical
method . . . . . . . . . . . . . . . . . 524--543
Alfonso Bueno-Orovio and
Elizabeth M. Cherry and
Flavio H. Fenton Minimal model for human ventricular
action potentials in tissue . . . . . . 544--560
Bernard J. Brennan and
Samuel M. Flaxman and
Suzanne H. Alonzo Female alternative reproductive
behaviors: The effect of female group
size on mate assessment and copying . . 561--569
Fenix W. D. Huang and
Christian M. Reidys Statistics of canonical RNA pseudoknot
structures . . . . . . . . . . . . . . . 570--578
Pufeng Du and
Yanda Li Prediction of C-to-U RNA editing sites
in plant mitochondria using both
biochemical and evolutionary information 579--586
Massimo Di Giulio Permuted tRNA genes of Cyanidioschyzon
merolae, the origin of the tRNA molecule
and the root of the Eukarya domain . . . 587--592
Soyoka Muko and
Yoh Iwasa Spatial heterogeneity of mortality and
temporal fluctuation in fertility
promote coexistence but not vice versa:
a random-community approach . . . . . . 593--600
J. G. Sumner and
M. A. Charleston and
L. S. Jermiin and
P. D. Jarvis Markov invariants, plethysms, and
phylogenetics . . . . . . . . . . . . . 601--615
R. P. Araujo and
E. F. Petricoin and
L. A. Liotta Critical dependence of blood-borne
biomarker concentrations on the
half-lives of their carrier proteins . . 616--622
Roland Pohlmeyer The genetic code revisited . . . . . . . 623--624
Jean-Hugues B. Hatier and
Kevin S. Gould Foliar anthocyanins as modulators of
stress signals . . . . . . . . . . . . . 625--627
Andrew Morozov and
Bai-Lian Li Corrigendum to ``Abundance patterns in
multi-species communities exposed to
habitat destruction'': [J. Theor. Biol.
\bf 251 (2008) 593--605] . . . . . . . . 628--628
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 405--628 (7 August 2008) . . . . . ??
Ricard V. Solé and
Carlos Rodríguez-Caso and
Thomas S. Deisboeck and
Joan Saldaña Cancer stem cells as the engine of
unstable tumor progression . . . . . . . 629--637
W. Konrad and
A. Roth-Nebelsick and
M. Grein Modelling of stomatal density response
to atmospheric CO2 . . . . . . . . . . . 638--658
Yukio-Pegio Gunji and
Tomohiro Shirakawa and
Takayuki Niizato and
Taichi Haruna Minimal model of a cell connecting
amoebic motion and adaptive transport
networks . . . . . . . . . . . . . . . . 659--667
Young-Seon Lee and
James P. Keener A calcium-induced calcium release
mechanism mediated by calsequestrin . . 668--679
Natalia L. Komarova and
Kimberly A. Jameson Population heterogeneity and color
stimulus heterogeneity in agent-based
color categorization . . . . . . . . . . 680--700
Angélique Stéphanou and
Eleni Mylona and
Mark Chaplain and
Philippe Tracqui A computational model of cell migration
coupling the growth of focal adhesions
with oscillatory cell protrusions . . . 701--716
Hanen Ben Hassen and
Afif Masmoudi and
Ahmed Rebai Causal inference in biomolecular
pathways using a Bayesian network
approach and an Implicit method . . . . 717--724
M. Anand and
K. Rajagopal and
K. R. Rajagopal A model for the formation, growth, and
lysis of clots in quiescent plasma. A
comparison between the effects of
antithrombin III deficiency and protein
C deficiency . . . . . . . . . . . . . . 725--738
Petro Babak and
Fangliang He Species abundance distribution and
dynamics in two locally coupled
communities . . . . . . . . . . . . . . 739--748
Helong Liu and
Jingyuan Yu and
Guangtian Zhu Global behaviour of an
age-infection-structured HIV model with
impulsive drug-treatment strategy . . . 749--754
George D. Tsibidis and
Jorge Ripoll Investigation of binding mechanisms of
nuclear proteins using confocal scanning
laser microscopy and FRAP . . . . . . . 755--768
Tanja Gernhard The conditioned reconstructed process 769--778
Akihiko Nakajima and
Kunihiko Kaneko Regulative differentiation as
bifurcation of interacting cell
population . . . . . . . . . . . . . . . 779--787
Hermann J. Eberl and
Rangarajan Sudarsan Exposure of biofilms to slow flow
fields: The convective contribution to
growth and disinfection . . . . . . . . 788--807
T. Keef and
R. Twarock and
K. M. Elsawy Blueprints for viral capsids in the
family of Polyomaviridae . . . . . . . . 808--816
Xiao-Fei Chi and
Xiang-Yang Lou and
Qing-Yao Shu Progressive fine mapping in experimental
populations: An improved strategy toward
positional cloning . . . . . . . . . . . 817--823
Bor-Sen Chen and
Chia-Hung Chang and
Yung-Jen Chuang Robust model matching control of immune
systems under environmental
disturbances: Dynamic game approach . . 824--837
Alon Manor and
Nadav M. Shnerb Facilitation, competition, and
vegetation patchiness: From scale free
distribution to patterns . . . . . . . . 838--842
Silvia Daun and
Jonathan Rubin and
Yoram Vodovotz and
Anirban Roy and
Robert Parker and
Gilles Clermont An ensemble of models of the acute
inflammatory response to bacterial
lipopolysaccharide in rats: Results from
parameter space reduction . . . . . . . 843--853
Qi Dai and
Tianming Wang Use of linear regression model to
compare RNA secondary structures . . . . 854--860
Anonymous Author Index . . . . . . . . . . . . . . 861--863
Anonymous Subject Index . . . . . . . . . . . . . 864--872
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 629--872 (21 August 2008) . . . . ??
Eirikur Palsson A $3$-D model used to explore how cell
adhesion and stiffness affect cell
sorting and movement in multicellular
systems . . . . . . . . . . . . . . . . 1--13
H. Sedaghat and
M. A. Wood and
J. W. Cain and
C. K. Cheng and
C. M. Baumgarten and
D. M. Chan Complex temporal patterns of spontaneous
initiation and termination of reentry in
a loop of cardiac tissue . . . . . . . . 14--26
Simone Frey and
Thomas Millat and
Stefan Hohmann and
Olaf Wolkenhauer How quantitative measures unravel design
principles in multi-stage
phosphorylation cascades . . . . . . . . 27--36
Anna Ochab-Marcinek Predicting the asymmetric response of a
genetic switch to noise . . . . . . . . 37--44
J. Turner and
R. G. Bowers and
D. Clancy and
M. C. Behnke and
R. M. Christley A network model of \bionameE. coli O157
transmission within a typical UK dairy
herd: The effect of heterogeneity and
clustering on the prevalence of
infection . . . . . . . . . . . . . . . 45--54
Elise Billoir and
Marie Laure Delignette-Muller and
Alexandre R. R. Péry and
Olivier Geffard and
Sandrine Charles Statistical cautions when estimating
DEBtox parameters . . . . . . . . . . . 55--64
Nicolas Bousquet and
Thierry Duchesne and
Louis-Paul Rivest Redefining the maximum sustainable yield
for the Schaefer population model
including multiplicative environmental
noise . . . . . . . . . . . . . . . . . 65--75
André Dumas and
James France Modelling the ontogeny of ectotherms
exhibiting indeterminate growth . . . . 76--81
Joanna Mazurkiewicz and
Jaros\law Zygierewicz and
Mikolaj Korzy\'nski Short term synaptic depression model ---
analytical solution and analysis . . . . 82--88
Anca R\vadulescu Schizophrenia --- a parameters' game? 89--98
Peter Bastian and
Andrés Chavarr\'ìa-Krauser and
Christian Engwer and
Willi Jäger and
Sven Marnach and
Mariya Ptashnyk Modelling in vitro growth of dense root
networks . . . . . . . . . . . . . . . . 99--109
Tomasz Lipniacki and
Beata Hat and
James R. Faeder and
William S. Hlavacek Stochastic effects and bistability in T
cell receptor signaling . . . . . . . . 110--122
Yujie Cai and
Jun Sun and
Jie Wang and
Yanrui Ding and
Na Tian and
Xiangru Liao and
Wenbo Xu Optimizing the codon usage of synthetic
gene with QPSO algorithm . . . . . . . . 123--127
Laura A. Shackelton and
Edward C. Holmes The role of alternative genetic codes in
viral evolution and emergence . . . . . 128--134
Z. Lu and
R. M. Mitchell and
R. L. Smith and
J. S. Van Kessel and
P. P. Chapagain and
Y. H. Schukken and
Y. T. Grohn The importance of culling in Johne's
disease control . . . . . . . . . . . . 135--146
Bryan D. Neff and
Trevor E. Pitcher Mate choice for non-additive genetic
benefits: a resolution to the lek
paradox . . . . . . . . . . . . . . . . 147--155
Robert A. Alberty Determination of kinetic parameters of
enzyme-catalyzed reactions with a
minimum number of velocity measurements 156--163
Hsiuying Wang and
Yun-Huei Tzeng and
Wen-Hsiung Li Improved variance estimators for one-
and two-parameter models of nucleotide
substitution . . . . . . . . . . . . . . 164--167
Chiyu Zhang and
Shungao Xu and
Ji-Fu Wei and
Donald R. Forsdyke Microsatellites that violate Chargaff's
second parity rule have base
order-dependent asymmetries in the
folding energies of complementary DNA
strands and may not drive speciation . . 168--177
Simeone Marino and
Ian B. Hogue and
Christian J. Ray and
Denise E. Kirschner A methodology for performing global
uncertainty and sensitivity analysis in
systems biology . . . . . . . . . . . . 178--196
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 1--196 (7 September 2008) . . . . ??
Christopher Quince and
Peter A. Abrams and
Brian J. Shuter and
Nigel P. Lester Biphasic growth in fish I: Theoretical
foundations . . . . . . . . . . . . . . 197--206
Christopher Quince and
Brian J. Shuter and
Peter A. Abrams and
Nigel P. Lester Biphasic growth in fish II: Empirical
assessment . . . . . . . . . . . . . . . 207--214
Yicang Zhou and
Kamran Khan and
Zhilan Feng and
Jianhong Wu Projection of tuberculosis incidence
with increasing immigration trends . . . 215--228
Mark P. Little and
Paolo Vineis and
Guangquan Li A stochastic carcinogenesis model
incorporating multiple types of genomic
instability fitted to colon cancer data 229--238
Jian Zu and
Wendi Wang and
Yasuhiro Takeuchi and
Bo Zu and
Kaifa Wang On evolution under symmetric and
asymmetric competitions . . . . . . . . 239--251
Takuyo Aita Hierarchical distribution of ascending
slopes, nearly neutral networks,
highlands, and local optima at the $d$
th order in an NK fitness landscape . . 252--263
Matthew J. Smith and
Jonathan A. Sherratt and
Xavier Lambin The effects of density-dependent
dispersal on the spatiotemporal dynamics
of cyclic populations . . . . . . . . . 264--274
Jingan Cui and
Xiaoxia Mu and
Hui Wan Saturation recovery leads to multiple
endemic equilibria and backward
bifurcation . . . . . . . . . . . . . . 275--283
James T. Murphy and
Ray Walshe and
Marc Devocelle A computational model of
antibiotic-resistance mechanisms in
Methicillin-Resistant
\bionameStaphylococcus aureus (MRSA) . . 284--293
M. R. Housaindokht and
M. R. Bozorgmehr and
M. Bahrololoom Analysis of ligand binding to proteins
using molecular dynamics simulations . . 294--300
Josef Pánek A comparative computational analysis of
protein sequences and literature mining
classify `orphan' neurotransmitter
transporters . . . . . . . . . . . . . . 301--307
Kedar Kulkarni and
Peter Larsen and
Andreas A. Linninger Assessing chronic liver toxicity based
on relative gene expression data . . . . 308--318
R. Tyson and
K. D. Newton and
H. Thistlewood and
G. Judd Mating rates between sterile and wild
codling moths (\bionameCydia pomonella)
in springtime: a simulation study . . . 319--330
M. Jesse and
P. Ezanno and
S. Davis and
J. A. P. Heesterbeek A fully coupled, mechanistic model for
infectious disease dynamics in a
metapopulation: Movement and epidemic
duration . . . . . . . . . . . . . . . . 331--338
Michael B. Bonsall and
Ben Raymond Lethal pathogens, non-lethal synergists
and the evolutionary ecology of
resistance . . . . . . . . . . . . . . . 339--349
Quan-Xing Liu and
Zhen Jin and
Bai-Lian Li Numerical investigation of spatial
pattern in a vegetation model with
feedback function . . . . . . . . . . . 350--360
Masood Banaie and
Yashar Sarbaz and
Shahriar Gharibzadeh and
Farzad Towhidkhah Huntington's disease: Modeling the gait
disorder and proposing novel treatments 361--367
Tobias Reichenbach and
Mauro Mobilia and
Erwin Frey Self-organization of mobile populations
in cyclic competition . . . . . . . . . 368--383
Shichang Wang and
Boyu Zhang and
Zhenqing Li and
Ross Cressman and
Yi Tao Evolutionary game dynamics with
impulsive effects . . . . . . . . . . . 384--389
Heather Hardway and
Bibhash Mukhopadhyay and
Timothy Burke and
Theron James Hitchman and
Robin Forman Modeling the precision and robustness of
Hunchback border during Drosophila
embryonic development . . . . . . . . . 390--399
Dan Dediu The role of genetic biases in shaping
the correlations between languages and
genes . . . . . . . . . . . . . . . . . 400--407
Anya K. Bershad and
Miguel A. Fuentes and
David C. Krakauer Developmental autonomy and somatic niche
construction promotes robust cell fate
decisions . . . . . . . . . . . . . . . 408--416
B. R. Locke and
S. T. Kinsey Diffusional constraints on energy
metabolism in skeletal muscle . . . . . 417--429
Daniel Campos and
Vicenç Méndez and
Sergei Fedotov The effects of distributed life cycles
on the dynamics of viral infections . . 430--438
Catherine A. A. Beauchemin and
James J. McSharry and
George L. Drusano and
Jack T. Nguyen and
Gregory T. Went and
Ruy M. Ribeiro and
Alan S. Perelson Modeling amantadine treatment of
influenza A virus in vitro . . . . . . . 439--451
Krzysztof Puszy\'nski and
Beata Hat and
Tomasz Lipniacki Oscillations and bistability in the
stochastic model of p53 regulation . . . 452--465
Ming Lu and
Lufang Zhou and
William C. Stanley and
Marco E. Cabrera and
Gerald M. Saidel and
Xin Yu Role of the malate-aspartate shuttle on
the metabolic response to myocardial
ischemia . . . . . . . . . . . . . . . . 466--475
Cristian Robert Munteanu and
Humberto González-Díaz and
Alexandre L. Magalhães Enzymes/non-enzymes classification model
complexity based on composition,
sequence, 3D and topological indices . . 476--482
Vijay Pappu and
Sai K. Doddi and
Prosenjit Bagchi A computational study of leukocyte
adhesion and its effect on flow pattern
in microvessels . . . . . . . . . . . . 483--498
Stefano Merler and
Piero Poletti and
Marco Ajelli and
Bruno Caprile and
Piero Manfredi Coinfection can trigger multiple
pandemic waves . . . . . . . . . . . . . 499--507
Catherine Kelly and
Kieran Smallbone and
Michael Brady Tumour glycolysis: The many faces of HIF 508--513
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 197--514 (21 September 2008) . . . ??
Dumitru Popescu and
Alin Gabriel Popescu The working of a pulsatory liposome . . 515--519
Irene Ament and
Stefan Scheu and
Barbara Drossel Influence of spatial structure on the
maintenance of sexual reproduction . . . 520--528
A. Bejan and
S. Lorente and
J. Lee Unifying constructal theory of tree
roots, canopies and forests . . . . . . 529--540
Marco A. Janssen and
Clint Bushman Evolution of cooperation and altruistic
punishment when retaliation is possible 541--545
R. S. Barrett and
G. A. Lichtwark Effect of altering neural, muscular and
tendinous factors associated with aging
on balance recovery using the ankle
strategy: a simulation study . . . . . . 546--554
Marija Rosandi\'c and
Matko Glunci\'c and
Vladimir Paar and
Ivan Basar The role of alphoid higher order repeats
(HORs) in the centromere folding . . . . 555--560
Codina Cotar and
John M. McNamara and
E. J. Collins and
Alasdair I. Houston Should females prefer to mate with
low-quality males? . . . . . . . . . . . 561--567
F. Di Patti and
D. Fanelli and
R. S. Pedersen and
C. Giuliani and
F. Torricelli Modelling the pharmacokinetics of
tramadol: On the difference between
CYP2D6 extensive and poor metabolizers 568--574
Piotr H. Pawlowski and
Beata Burzy\'nska and
Piotr Zielenkiewicz Theoretical model of thalassemic
erythrocyte shape transformation . . . . 575--579
S. C. Nicolis and
E. Despland and
A. Dussutour Collective decision-making and
behavioral polymorphism in group living
organisms . . . . . . . . . . . . . . . 580--586
Lev V. Nedorezov and
Bernhard L. Löhr and
Dinara L. Sadykova Assessing the importance of
self-regulating mechanisms in
diamondback moth population dynamics:
Application of discrete mathematical
models . . . . . . . . . . . . . . . . . 587--593
Steven Bodovitz The neural correlate of consciousness 594--598
Simon Thornley and
Chris Bullen and
Mick Roberts Hepatitis B in a high prevalence New
Zealand population: a mathematical model
applied to infection control policy . . 599--603
Daniel K. Riskin and
David J. Willis and
José Iriarte-D\'ìaz and
Tyson L. Hedrick and
Mykhaylo Kostandov and
Jian Chen and
David H. Laidlaw and
Kenneth S. Breuer and
Sharon M. Swartz Quantifying the complexity of bat wing
kinematics . . . . . . . . . . . . . . . 604--615
Immanuel Bomze and
Christina Pawlowitsch One-third rules with equality:
Second-order evolutionary stability
conditions in finite populations . . . . 616--620
N. H. Ogden and
M. Bigras-Poulin and
K. Hanincová and
A. Maarouf and
C. J. O'Callaghan and
K. Kurtenbach Projected effects of climate change on
tick phenology and fitness of pathogens
transmitted by the North American tick
Ixodes scapularis . . . . . . . . . . . 621--632
C. P. Bhunu and
W. Garira and
Z. Mukandavire and
G. Magombedze Modelling the effects of pre-exposure
and post-exposure vaccines in
tuberculosis control . . . . . . . . . . 633--649
Eric S. Dickson Expected utility violations evolve under
status-based selection mechanisms . . . 650--654
Taro Ueno and
Naoki Masuda Controlling nosocomial infection based
on structure of hospital social networks 655--666
J. J. Bull The optimal burst of mutation to create
a phenotype . . . . . . . . . . . . . . 667--673
Elizabeth M. Cherry and
Steven J. Evans Properties of two human atrial cell
models in tissue: Restitution, memory,
propagation, and reentry . . . . . . . . 674--690
Xuan Xiao and
Pu Wang and
Kuo-Chen Chou Predicting protein structural classes
with pseudo amino acid composition: An
approach using geometric moments of
cellular automaton image . . . . . . . . 691--696
Michele Caputo and
Cesare Cametti Diffusion with memory in two cases of
biological interest . . . . . . . . . . 697--703
J. Martínez-Reina and
J. M. García-Aznar and
J. Domínguez and
M. Doblaré On the role of bone damage in calcium
homeostasis . . . . . . . . . . . . . . 704--712
Morten Overgaard and
Kristian Sandberg and
Mads Jensen The neural correlate of consciousness? 713--715
William H. James Women's age, weight, parity and
offspring sex ratio: a comment on the
paper of Helle . . . . . . . . . . . . . 716--716
Hanna Isaksson and
Corrinus C. van Donkelaar and
Rik Huiskes and
Keita Ito Corrigendum to ``A mechano-regulatory
bone-healing model incorporating
cell-phenotype specific activity'': [J.
Theor. Biol. \bf 252 (2008) 230--246] 717--717
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 515--718 (7 October 2008) . . . . ??
Burton Simon A stochastic model of evolutionary
dynamics with deterministic
large-population asymptotics . . . . . . 719--730
Edmund Christiansen and
Andrew Swann and
Thorkild I. A. Sòrensen Feedback models allowing estimation of
thresholds for self-promoting body
weight gain . . . . . . . . . . . . . . 731--736
Daniel J. C. Kronauer Genomic imprinting and kinship in the
social Hymenoptera: What are the
predictions? . . . . . . . . . . . . . . 737--740
T. Carletti and
R. Serra and
I. Poli and
M. Villani and
A. Filisetti Sufficient conditions for emergent
synchronization in protocell models . . 741--751
Jie Feng and
Tian-ming Wang Characterization of protein primary
sequences based on partial ordering . . 752--755
Mark A. Changizi and
Shinsuke Shimojo ``X-ray vision'' and the evolution of
forward-facing eyes . . . . . . . . . . 756--767
Alexander Feigel Essential conditions for evolution of
communication within a species . . . . . 768--774
Cristian Robert Munteanu and
Humberto González-Díaz and
Fernanda Borges and
Alexandre Lopes de Magalhães Natural/random protein classification
models based on star network topological
indices . . . . . . . . . . . . . . . . 775--783
Hiroshi Momiji and
Nicholas A. M. Monk Dissecting the dynamics of the Hes1
genetic oscillator . . . . . . . . . . . 784--798
Alla Bulashevska and
Roland Eils Using Bayesian multinomial classifier to
predict whether a given protein sequence
is intrinsically disordered . . . . . . 799--803
Daniel A. M. M. Silvestre and
José F. Fontanari The information capacity of hypercycles 804--806
Zoran Nikoloski and
Sergio Grimbs and
Patrick May and
Joachim Selbig Metabolic networks are NP-hard to
reconstruct . . . . . . . . . . . . . . 807--816
Mohammad Ali Rezaei and
Parviz Abdolmaleki and
Zahra Karami and
Ebrahim Barzegari Asadabadi and
Mohammad Amin Sherafat and
Hamid Abrishami-Moghaddam and
Marziyeh Fadaie and
Mohammad Forouzanfar Prediction of membrane protein types by
means of wavelet analysis and cascaded
neural networks . . . . . . . . . . . . 817--820
Paul S. Agutter The flux-summation theorem and the
`evolution of dominance' . . . . . . . . 821--825
Jeffrey C. Schank The development of locomotor kinematics
in neonatal rats: An agent-based
modeling analysis in group and
individual contexts . . . . . . . . . . 826--842
Josef Hofbauer and
Simon M. Huttegger Feasibility of communication in binary
signaling games . . . . . . . . . . . . 843--849
Ivan Mura and
Attila Csikász-Nagy Stochastic Petri Net extension of a
yeast cell cycle model . . . . . . . . . 850--860
Veena Nukoolkarn and
Vannajan Sanghiran Lee and
Maturos Malaisree and
Ornjira Aruksakulwong and
Supot Hannongbua Molecular dynamic simulations analysis
of ritronavir and lopinavir as SARS-CoV
3CL pro inhibitors . . . . . . . . . . . 861--867
Soyoka Muko and
Yoh Iwasa Erratum to ``Spatial heterogeneity of
mortality and temporal fluctuation in
fertility promote coexistence but not
vice versa: a random-community
approach'' [J. Theor. Biol. \bf 253
(2008) 593--600] . . . . . . . . . . . . 868--868
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 719--868 (21 October 2008) . . . . ??
Manoj Srinivasan and
Philip Holmes How well can spring-mass-like
telescoping leg models fit multi-pedal
sagittal-plane locomotion data? . . . . 1--7
Jaroslav Kubrycht and
Karel Sigler Length of the hypermutation motif
DGYW/WRCH in the focus of statistical
limits. Implications for a double-motif
or extended motif recognition models . . 8--15
Geoffrey R. Hosack and
Philippe A. Rossignol and
P. van den Driessche The control of vector-borne disease
epidemics . . . . . . . . . . . . . . . 16--25
Hanna Isaksson and
Corrinus C. van Donkelaar and
Rik Huiskes and
Jiang Yao and
Keita Ito Determining the most important cellular
characteristics for fracture healing
using design of experiments methods . . 26--39
D. Napoletani and
T. Sauer and
D. C. Struppa and
E. Petricoin and
L. Liotta Augmented sparse reconstruction of
protein signaling networks . . . . . . . 40--52
Jacques M. Bahi and
Christian J. Michel A stochastic model of gene evolution
with chaotic mutations . . . . . . . . . 53--63
Steven A. Frank Evolutionary dynamics of redundant
regulatory control . . . . . . . . . . . 64--68
Dobromir T. Dimitrov and
Thomas G. Hallam and
Charles E. Rupprecht and
Gary F. McCracken Adaptive modeling of viral diseases in
bats with a focus on rabies . . . . . . 69--80
Mark Broom and
Roger M. Luther and
Graeme D. Ruxton and
Jan Rychtár A game-theoretic model of
kleptoparasitic behavior in polymorphic
populations . . . . . . . . . . . . . . 81--91
P. Tracqui and
J. Ohayon and
T. Boudou Theoretical analysis of the adaptive
contractile behaviour of a single
cardiomyocyte cultured on elastic
substrates with varying stiffness . . . 92--105
Kieran Smallbone and
Robert A. Gatenby and
Philip K. Maini Mathematical modelling of tumour acidity 106--112
Mina Jahandideh and
Seyyed Mohsen Hosseini Barkooie and
Samad Jahandideh and
Parviz Abdolmaleki and
Mohammad Mehdi Movahedi and
Somayyeh Hoseini and
Ebrahim Barzegari Asadabadi and
Fatemeh Javani Jouni and
Zahra Karami and
Nader Hodjati Firoozabadi Elucidating the protein cold-adaptation:
Investigation of the parameters
enhancing protein psychrophilicity . . . 113--118
Dávid Csercsik and
Katalin M. Hangos and
György M. Nagy A simple reaction kinetic model of rapid
(G protein dependent) and slow ($ \beta
$-Arrestin dependent) transmission . . . 119--128
Jinya Otsuka A theoretical approach to the
large-scale evolution of
multicellularity and cell
differentiation . . . . . . . . . . . . 129--136
Véronique Ladret and
Sabin Lessard Evolutionary game dynamics in a finite
asymmetric two-deme population and
emergence of cooperation . . . . . . . . 137--151
Manojit Roy and
Karin Harding and
Robert D. Holt Generalizing Levins metapopulation model
in explicit space: Models of
intermediate complexity . . . . . . . . 152--161
Revathi Ananthakrishnan and
Jochen Guck and
Falk Wottawah and
Stefan Schinkinger and
Bryan Lincoln and
Maren Romeyke and
Tess Moon and
Josef Käs Corrigendum to ``Quantifying the
contribution of actin networks to the
elastic strength of fibroblasts'' [J.
Theor. Biol. \bf 242 (2006) 502--516] 162--162
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 1--162 (7 November 2008) . . . . . ??
Zaiyi Guo and
Peter M. A. Sloot and
Joc Cing Tay A hybrid agent-based approach for
modeling microbiological systems . . . . 163--175
Olaf Till and
Tobias Siebert and
Christian Rode and
Reinhard Blickhan Characterization of isovelocity
extension of activated muscle: a
Hill-type model for eccentric
contractions and a method for parameter
determination . . . . . . . . . . . . . 176--187
N. Kurochkina Specific sequence combinations at
parallel and antiparallel helix-helix
interfaces . . . . . . . . . . . . . . . 188--198
William H. James The variations of human sex ratio at
birth with time of conception within the
cycle, coital rate around the time of
conception, duration of time taken to
achieve conception, and duration of
gestation: a synthesis . . . . . . . . . 199--204
Chunbo Lou and
Zhengyan Li and
Qi Ouyang A molecular model for persister in
\bionameE. coli . . . . . . . . . . . . 205--209
Gitit Shahaf and
Micha\l Barak and
Neta S. Zuckerman and
Naamah Swerdlin and
Malka Gorfine and
Ramit Mehr Antigen-driven selection in germinal
centers as reflected by the shape
characteristics of immunoglobulin gene
lineage trees: a large-scale simulation
study . . . . . . . . . . . . . . . . . 210--222
Eugene M. G. Milne The natural distribution of survival . . 223--236
Emily R. Stirk and
Carmen Molina-París and
Hugo A. van den Berg Stochastic niche structure and diversity
maintenance in the T cell repertoire . . 237--249
Elva J. H. Robinson and
Francis L. W. Ratnieks and
M. Holcombe An agent-based model to investigate the
roles of attractive and repellent
pheromones in ant decision making during
foraging . . . . . . . . . . . . . . . . 250--258
Honda Naoki and
Yuichi Sakumura and
Shin Ishii Stochastic control of spontaneous signal
generation for gradient sensing in
chemotaxis . . . . . . . . . . . . . . . 259--266
Ralf Schmid Pitfalls of using out of date databases.
Comment on Guo et al. and Guo et al. . . 267--267
Mark P. Little and
Paolo Vineis and
Guangquan Li Erratum to ``A stochastic carcinogenesis
model incorporating multiple types of
genomic instability fitted to colon
cancer data'' [J. Theor. Biol. \bf 254
(2008) 229--238] . . . . . . . . . . . . 268--268
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 163--268 (21 November 2008) . . . ??
Maria Davidich and
Stefan Bornholdt The transition from differential
equations to Boolean networks: a case
study in simplifying a regulatory
network model . . . . . . . . . . . . . 269--277
Christopher J. Brinkerhoff and
John R. Traynor and
Jennifer J. Linderman Collision coupling, crosstalk, and
compartmentalization in G-protein
coupled receptor systems: Can a single
model explain disparate results? . . . . 278--286
J. M. Clearwater and
C. J. Rennie and
P. A. Robinson Mean field model of acetylcholine
mediated dynamics in the thalamocortical
system . . . . . . . . . . . . . . . . . 287--298
Frank M. Hilker and
Kirsten Schmitz Disease-induced stabilization of
predator-prey oscillations . . . . . . . 299--306
Hugo Devillers and
Jean Raymond Lobry and
Frédéric Menu An agent-based model for predicting the
prevalence of \bionameTrypanosoma cruzi
I and II in their host and vector
populations . . . . . . . . . . . . . . 307--315
Xiaofeng Ji and
Yuejun Wang and
Haiying Wang and
Mi Sun Identification of protein latent
periodicities using recurrent
correlation analysis . . . . . . . . . . 316--319
Marc Bailly-Bechet and
Michel Kerszberg and
Françoise Gaill and
Florence Pradillon A modeling approach of the influence of
local hydrodynamic conditions on larval
dispersal at hydrothermal vents . . . . 320--331
Paolo D'Odorico and
Francesco Laio and
Luca Ridolfi and
Manuel T. Lerdau Biodiversity enhancement induced by
environmental noise . . . . . . . . . . 332--337
Jeffrey. W. Osborn A model of growth restraints to explain
the development and evolution of tooth
shapes in mammals . . . . . . . . . . . 338--343
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 269--344 (7 December 2008) . . . . ??
Ricardo Augusto Mendonça Vieira and
Luis Orlindo Tedeschi and
Antonello Cannas A generalized compartmental model to
estimate the fibre mass in the
ruminoreticulum: 1. Estimating
parameters of digestion . . . . . . . . 345--356
Ricardo Augusto Mendonça Vieira and
Luis Orlindo Tedeschi and
Antonello Cannas A generalized compartmental model to
estimate the fibre mass in the
ruminoreticulum: 2. Integrating
digestion and passage . . . . . . . . . 357--368
Matthew O'Toole and
Robert Latham and
Rehan M. Baqri and
Kyle E. Miller Modeling mitochondrial dynamics during
in vivo axonal elongation . . . . . . . 369--377
N. Ichinose and
T. Yada and
O. Gotoh and
K. Aihara Reconstruction of
transcription-translation dynamics with
a model of gene networks . . . . . . . . 378--386
Craig R. Powell and
Alan J. McKane Predicting the species abundance
distribution using a model food web . . 387--395
Alfonsas Juska Minimal models of multi-site
ligand-binding kinetics . . . . . . . . 396--403
Federico Rossi and
Sandra Ristori and
Mauro Rustici and
Nadia Marchettini and
Enzo Tiezzi Dynamics of pattern formation in
biomimetic systems . . . . . . . . . . . 404--412
A. J. K. Phillips and
P. A. Robinson Sleep deprivation in a quantitative
physiologically based model of the
ascending arousal system . . . . . . . . 413--423
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 345--424 (21 December 2008) . . . ??
Robert M. Seymour and
Peter D. Sozou Duration of courtship effort as a costly
signal . . . . . . . . . . . . . . . . . 1--13
Jason T. Noel and
Sergei S. Pilyugin and
Atul Narang The diffusive influx and carrier efflux
have a strong effect on the bistability
of the lac operon in \bionameEscherichia
coli . . . . . . . . . . . . . . . . . . 14--28
Atsuko Takamatsu and
Eri Takaba and
Ginjiro Takizawa Environment-dependent morphology in
plasmodium of true slime mold
\bionamePhysarum polycephalum and a
network growth model . . . . . . . . . . 29--44
David G. Rand and
Hisashi Ohtsuki and
Martin A. Nowak Direct reciprocity with costly
punishment: Generous tit-for-tat
prevails . . . . . . . . . . . . . . . . 45--57
Patricia Geli and
Mikael Andersson and
Åke Svensson and
Dan I. Andersson A multi-type branching model with
varying environment for bacterial
dynamics with postantibiotic effect . . 58--64
Diana E. Marco and
Sergio A. Cannas and
Marcelo A. Montemurro and
Bo Hu and
Shi-Yuan Cheng Comparable ecological dynamics underlie
early cancer invasion and species
dispersal, involving self-organizing
processes . . . . . . . . . . . . . . . 65--75
Mauricio González-Forero Removing ambiguity from the biological
species concept . . . . . . . . . . . . 76--80
John A. Byers Modeling distributions of flying
insects: Effective attraction radius of
pheromone in two and three dimensions 81--89
Robert A. Laird and
Brandon S. Schamp Species coexistence, intransitivity, and
topological variation in competitive
tournaments . . . . . . . . . . . . . . 90--95
E. R. Dumont and
I. R. Grosse and
G. J. Slater Requirements for comparing the
performance of finite element models of
biological structures . . . . . . . . . 96--103
Tatiana Lomasko and
Charles J. Lumsden One-hit stochastic decline in a
mechanochemical model of
cytoskeleton-induced neuron death III:
Diffusion pulse death zones . . . . . . 104--116
Andreas Handel and
Ira M. Longini and
Rustom Antia Antiviral resistance and the control of
pandemic influenza: The roles of
stochasticity, evolution and model
details . . . . . . . . . . . . . . . . 117--125
Anmar Khadra and
Pere Santamaria and
Leah Edelstein-Keshet The role of low avidity T cells in the
protection against type 1 diabetes: a
modeling investigation . . . . . . . . . 126--141
Peter Klimek and
Stefan Thurner and
Rudolf Hanel Pruning the tree of life: $k$-Core
percolation as selection mechanism . . . 142--146
Samad Jahandideh and
Somayyeh Hoseini and
Mina Jahandideh Toward more accuracy in protein
structural bioinformatics: Have novel
hybrid modeling procedures been born? 147--147
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 1--148 (7 January 2009) . . . . . ??
Ramana M. Pidaparti and
David V. Svintradze and
YingFeng Shan and
Hiroki Yokota Optimization of hydrogen bonds for
combined DNA/collagen complex . . . . . 149--156
Frédéric Gosselin and
Jean-Dominique Lebreton Asymptotic properties of infinite Leslie
matrices . . . . . . . . . . . . . . . . 157--163
Jennifer L. Slater and
Kerry A. Landman and
Barry D. Hughes and
Qin Shen and
Sally Temple Cell lineage tree models of neurogenesis 164--179
Tracy M. Backes and
Russell Latterman and
Stephen A. Small and
Steven Mattis and
Gwyn Pauley and
Emily Reilly and
Sharon R. Lubkin Convergent extension by intercalation
without mediolaterally fixed cell motion 180--186
Samuel M. Flaxman and
Yuan Lou Tracking prey or tracking the prey's
resource? Mechanisms of movement and
optimal habitat selection by predators 187--200
M. J. Jeger and
P. Jeffries and
Y. Elad and
X.-M. Xu A generic theoretical model for
biological control of foliar plant
diseases . . . . . . . . . . . . . . . . 201--214
Cristina Benros and
Alexandre G. de Brevern and
Serge Hazout Analyzing the sequence-structure
relationship of a library of local
structural prototypes . . . . . . . . . 215--226
Peter McCauley and
Leonid V. Kalachev and
Amber D. Smith and
Gregory Belenky and
David F. Dinges and
Hans P. A. Van Dongen A new mathematical model for the
homeostatic effects of sleep loss on
neurobehavioral performance . . . . . . 227--239
Estrella A. Sicardi and
Hugo Fort and
Mendeli H. Vainstein and
Jeferson J. Arenzon Random mobility and spatial structure
often enhance cooperation . . . . . . . 240--246
Mareike Fischer and
Mike Steel Sequence length bounds for resolving a
deep phylogenetic divergence . . . . . . 247--252
Lambertus A. Peletier and
Neil Benson and
Piet H. van der Graaf Impact of plasma-protein binding on
receptor occupancy: An analytical
description . . . . . . . . . . . . . . 253--262
Mike Mesterton-Gibbons and
Tom N. Sherratt Neighbor intervention: a game-theoretic
model . . . . . . . . . . . . . . . . . 263--275
Yuehua Cui and
Wenzhao Yang Zero-inflated generalized Poisson
regression mixture model for mapping
quantitative trait loci underlying count
trait with many zeros . . . . . . . . . 276--285
Jean-Baptiste Ferdy Virulence and transmission modes in
metapopulations: When group selection
increases virulence . . . . . . . . . . 286--296
Takuya Sekiguchi and
Mayuko Nakamaru Effect of the presence of empty sites on
the evolution of cooperation by costly
punishment in spatial games . . . . . . 297--304
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 149--304 (21 January 2009) . . . . ??
G. Dattoli and
C. Guiot and
P. P. Delsanto and
P. L. Ottaviani and
S. Pagnutti and
T. S. Deisboeck Cancer metabolism and the dynamics of
metastasis . . . . . . . . . . . . . . . 305--310
Hiroshi Toyoizumi Sample path analysis of contribution and
reward in cooperative groups . . . . . . 311--314
Hao Zhu Is anisotropic propagation of polarized
molecular distribution the common
mechanism of swirling patterns of planar
cell polarization? . . . . . . . . . . . 315--325
Shu Ju and
Donald L. DeAngelis The $ R^* $ rule and energy flux in a
plant-nutrient ecosystem . . . . . . . . 326--332
Leonid Hanin and
Saria S. Awadalla and
Paul Cox and
Galina Glazko and
Andrei Yakovlev Chromosome-specific spatial
periodicities in gene expression
revealed by spectral analysis . . . . . 333--342
Piers L. Cornelissen and
Martin J. Toveé and
Melissa Bateson Patterns of subcutaneous fat deposition
and the relationship between body mass
index and waist-to-hip ratio:
Implications for models of physical
attractiveness . . . . . . . . . . . . . 343--350
Shu-ichi Kinoshita and
Kazumoto Iguchi and
Hiroaki S. Yamada Intrinsic properties of Boolean dynamics
in complex networks . . . . . . . . . . 351--369
T. Alméras and
M. Fournier Biomechanical design and long-term
stability of trees: Morphological and
wood traits involved in the balance
between weight increase and the
gravitropic reaction . . . . . . . . . . 370--381
Shingo Iwami and
Yasuhiro Takeuchi and
Kentaro Iwamoto and
Yoshimi Naruo and
Masahiro Yasukawa A mathematical design of vector vaccine
against autoimmune disease . . . . . . . 382--392
Eric Yang and
Martin L. Yarmush and
Ioannis P. Androulakis Transcription factor network
reconstruction using the living cell
array . . . . . . . . . . . . . . . . . 393--407
Tao Yu and
Xiaoqin Zou and
Sheng-You Huang and
Xian-Wu Zou Cutoff variation induces different
topological properties: a new discovery
of amino acid network within protein . . 408--413
A. Wickramasuriya and
J. Schmitt Improving horizontal plane locomotion
via leg angle control . . . . . . . . . 414--427
Ri-Bo Huang and
Qi-Shi Du and
Yu-Tuo Wei and
Zong-Wen Pang and
Hang Wei and
Kuo-Chen Chou Physics and chemistry-driven artificial
neural network for predicting
bioactivity of peptides and proteins and
their design . . . . . . . . . . . . . . 428--435
T. Caruso and
M. Migliorini Euclidean geometry explains why lengths
allow precise body mass estimates in
terrestrial invertebrates: The case of
oribatid mites . . . . . . . . . . . . . 436--440
Hong-Bin Shen and
Kuo-Chen Chou Predicting protein fold pattern with
functional domain and sequential
evolution information . . . . . . . . . 441--446
Huai-Ti Lin and
A. Luis Dorfmann and
Barry A. Trimmer Soft-cuticle biomechanics: a
constitutive model of anisotropy for
caterpillar integument . . . . . . . . . 447--457
Alcides Perez-Bello and
Cristian Robert Munteanu and
Florencio M. Ubeira and
Alexandre Lopes De Magalhães and
Eugenio Uriarte and
Humberto González-D\'ìaz Alignment-free prediction of
mycobacterial DNA promoters based on
pseudo-folding lattice network or
star-graph topological indices . . . . . 458--466
Mike Steel A basic limitation on inferring
phylogenies by pairwise sequence
comparisons . . . . . . . . . . . . . . 467--472
Alberto d'Onofrio and
Piero Manfredi Information-related changes in contact
patterns may trigger oscillations in the
endemic prevalence of infectious
diseases . . . . . . . . . . . . . . . . 473--478
Marco Archetti Decoupling vigour and quality in the
autumn colours game: Weak individuals
can signal, cheating can pay . . . . . . 479--484
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 305--484 (7 February 2009) . . . . ??
Jinzhi Lei Stochasticity in single gene expression
with both intrinsic noise and
fluctuation in kinetic parameters . . . 485--492
Pauline Ezanno and
Matthieu Lesnoff A metapopulation model for the spread
and persistence of contagious bovine
pleuropneumonia (CBPP) in African
sedentary mixed crop-livestock systems 493--503
M. D. Harrison and
M. Broom A game-theoretic model of interspecific
brood parasitism with sequential
decisions . . . . . . . . . . . . . . . 504--517
Michael Beil and
Sebastian Lück and
Frank Fleischer and
Stéphanie Portet and
Wolfgang Arendt and
Volker Schmidt Simulating the formation of keratin
filament networks by a
piecewise-deterministic Markov process 518--532
Robert J. Whittaker and
Richard Booth and
Rosemary Dyson and
Clare Bailey and
Louise Parsons Chini and
Shailesh Naire and
Sevil Payvandi and
Zimei Rong and
Hannah Woollard and
Linda J. Cummings and
Sarah L. Waters and
Lina Mawasse and
Julian B. Chaudhuri and
Marianne J. Ellis and
Vipin Michael and
Nicola J. Kuiper and
Sarah Cartmell Mathematical modelling of fibre-enhanced
perfusion inside a tissue-engineering
bioreactor . . . . . . . . . . . . . . . 533--546
Krisztina Szalisznyó and
László Müller Dopamine induced switch in the
subthreshold dynamics of the striatal
cholinergic interneurons: a numerical
study . . . . . . . . . . . . . . . . . 547--560
Emmanuel N. Abatih and
Lis Alban and
Annette K. Ersbòll and
Danilo M. Lo Fo Wong Impact of antimicrobial usage on the
transmission dynamics of antimicrobial
resistant bacteria among pigs . . . . . 561--573
A. Y. Kletter and
J. von Hardenberg and
E. Meron and
A. Provenzale Patterned vegetation and rainfall
intermittency . . . . . . . . . . . . . 574--583
M. Pietruszka General proof of the validity of a new
tensor equation of plant growth . . . . 584--585
Michael Manapat and
Hisashi Ohtsuki and
Reinhard Bürger and
Martin A. Nowak Originator dynamics . . . . . . . . . . 586--595
Jin Seob Kim and
Sean X. Sun Continuum modeling of forces in growing
viscoelastic cytoskeletal networks . . . 596--606
Kasper Peeters and
Anne Taormina Group theory of icosahedral virus capsid
vibrations: a top-down approach . . . . 607--624
Jian-Ding Qiu and
San-Hua Luo and
Jian-Hua Huang and
Ru-Ping Liang Using support vector machines to
distinguish enzymes: Approached by
incorporating wavelet transform . . . . 625--631
Ludvik Bass and
Susanne Keiding and
Ole L. Munk Benefits and risks of transforming data
from dynamic positron emission
tomography, with an application to
hepatic encephalopathy . . . . . . . . . 632--636
Ting Ji and
Boyu Zhang and
Yuehua Sun and
Yi Tao Evolutionary dynamics of fearfulness and
boldness . . . . . . . . . . . . . . . . 637--643
Chie Katsuyama and
Shinji Nakaoka and
Yasuhiro Takeuchi and
Kanako Tago and
Masahito Hayatsu and
Kenji Kato Complementary cooperation between two
syntrophic bacteria in pesticide
degradation . . . . . . . . . . . . . . 644--654
Andreas Handel and
Elisa Margolis and
Bruce R. Levin Exploring the role of the immune
response in preventing antibiotic
resistance . . . . . . . . . . . . . . . 655--662
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 485--662 (21 February 2009) . . . ??
Mayuko Nakamaru and
Ulf Dieckmann Runaway selection for cooperation and
strict-and-severe punishment . . . . . . 1--8
Alan S. Perelson and
Frederik W. Wiegel Scaling aspects of lymphocyte
trafficking . . . . . . . . . . . . . . 9--16
D. N. Georgiou and
T. E. Karakasidis and
J. J. Nieto and
A. Torres Use of fuzzy clustering technique and
matrices to classify amino acids and its
impact to Chou's pseudo amino acid
composition . . . . . . . . . . . . . . 17--26
Catherine Foley and
Michael C. Mackey Mathematical model for G-CSF
administration after chemotherapy . . . 27--44
József Garay Cooperation in defence against a
predator . . . . . . . . . . . . . . . . 45--51
Sebastián Risau-Gusman and
Damián H. Zanette Contact switching as a control strategy
for epidemic outbreaks . . . . . . . . . 52--60
Olena Riabinina and
Andrew O. Philippides A model of visual detection of angular
speed for bees . . . . . . . . . . . . . 61--72
Martin Kroon and
Gerhard A. Holzapfel A theoretical model for
fibroblast-controlled growth of saccular
cerebral aneurysms . . . . . . . . . . . 73--83
J. Apaloo Evolutionary matrix games and
optimization theory . . . . . . . . . . 84--89
Rafael D. Vilela and
Benjamin Lindner Are the input parameters of white noise
driven integrate and fire neurons
uniquely determined by rate and CV? . . 90--99
Daniel Nettle An evolutionary model of low mood states 100--103
Duncan N. L. Menge and
Joshua S. Weitz Dangerous nutrients: Evolution of
phytoplankton resource uptake subject to
virus attack . . . . . . . . . . . . . . 104--115
William H. James The variations of human sex ratio at
birth during and after wars, and their
potential explanations . . . . . . . . . 116--123
Michael Halter and
John T. Elliott and
Joseph B. Hubbard and
Alessandro Tona and
Anne L. Plant Cell volume distributions reveal cell
growth rates and division times . . . . 124--130
David C. Wedge and
William Rowe and
Douglas B. Kell and
Joshua Knowles In silico modelling of directed
evolution: Implications for experimental
design and stepwise evolution . . . . . 131--141
Ryan A. Chisholm and
Elise Filotas Critical slowing down as an indicator of
transitions in two-species models . . . 142--149
Hans-Rolf Gregorius Relational diversity . . . . . . . . . . 150--158
Jie Yang Molecular modeling of human BAD and its
interaction with PKAc or PP1c . . . . . 159--169
Craig R. Powell and
Richard P. Boland The effects of stochastic population
dynamics on food web structure . . . . . 170--180
Shingo Iwami and
Yasuhiro Takeuchi and
Xianning Liu Avian flu pandemic: Can we prevent it? 181--190
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 1--190 (7 March 2009) . . . . . . ??
Makoto Okamoto and
Shigeru Sunada and
Hiroshi Tokutake Stability analysis of gliding flight of
a swallowtail butterfly Papilio xuthus 191--202
Roberto Ambrosini and
Anders Pape Mòller and
Nicola Saino A quantitative measure of migratory
connectivity . . . . . . . . . . . . . . 203--211
David Fouchet and
Jacques Le Pendu and
Jean-Sébastien Guitton and
Micheline Guiserix and
Stéphane Marchandeau and
Dominique Pontier Evolution of microparasites in spatially
and genetically structured host
populations: The example of RHDV
infecting rabbits . . . . . . . . . . . 212--227
E. \`E. Saftenku Computational study of non-homogeneous
distribution of Ca$^{2+}$ handling
systems in cerebellar granule cells . . 228--244
D. Waxman Fixation at a locus with multiple
alleles: Structure and solution of the
Wright Fisher model . . . . . . . . . . 245--251
Alain Rapaport and
Denis Dochain and
Jérôme Harmand Long run coexistence in the chemostat
with multiple species . . . . . . . . . 252--259
Dusan Lazár and
Jirí Jablonský On the approaches applied in formulation
of a kinetic model of photosystem II:
Different approaches lead to different
simulations of the chlorophyll a
fluorescence transients . . . . . . . . 260--269
Zhong Zhao and
Lansun Chen Dynamic analysis of lactic acid
fermentation in membrane bioreactor . . 270--278
Henggui Zhang and
Tao Tao and
Sanjay Kharche and
Simon M. Harrison Modelling changes in transmural
propagation and susceptibility to
arrhythmia induced by volatile
anaesthetics in ventricular tissue . . . 279--291
Helen C. Monro and
Eamonn A. Gaffney Modelling chemotherapy resistance in
palliation and failed cure . . . . . . . 292--302
Cristian Robert Munteanu and
Alexandre L. Magalhães and
Eugenio Uriarte and
Humberto González-Díaz Multi-target QPDR classification model
for human breast and colon
cancer-related proteins using star graph
topological indices . . . . . . . . . . 303--311
Junghyo Jo and
Moo Young Choi and
Duk-Su Koh Beneficial effects of intercellular
interactions between pancreatic islet
cells in blood glucose regulation . . . 312--319
Roland Kaunas and
Hui-Ju Hsu A kinematic model of stretch-induced
stress fiber turnover and reorientation 320--330
Robert Boyd and
Peter J. Richerson Voting with your feet: Payoff biased
migration and the evolution of group
beneficial behavior . . . . . . . . . . 331--339
Tibor Antal and
Martin A. Nowak and
Arne Traulsen Strategy abundance in 2$ \times $2 games
for arbitrary mutation rates . . . . . . 340--344
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 191--344 (21 March 2009) . . . . . ??
Peter R. Wills Informed Generation: Physical origin and
biological evolution of genetic
codescript interpreters . . . . . . . . 345--358
Anna Grosberg and
Morteza Gharib Computational models of heart pumping
efficiencies based on contraction waves
in spiral elastic bands . . . . . . . . 359--370
M. J. Tindall and
J. A. D. Wattis and
B. J. O'Malley and
L. Pickersgill and
K. G. Jackson A continuum receptor model of hepatic
lipoprotein metabolism . . . . . . . . . 371--384
Koichiro Uriu and
Yoshihiro Morishita and
Yoh Iwasa Traveling wave formation in vertebrate
segmentation . . . . . . . . . . . . . . 385--396
István Scheuring Evolution of generous cooperative norms
by cultural group selection . . . . . . 397--407
Thomas O. Svennungsen and
Éva Kisdi Evolutionary branching of virulence in a
single-infection model . . . . . . . . . 408--418
Dominique Chu and
Nicolae Radu Zabet and
Boris Mitavskiy Models of transcription factor binding:
Sensitivity of activation functions to
model assumptions . . . . . . . . . . . 419--429
Cassie S. Mitchell and
Robert H. Lee A quantitative examination of the role
of cargo-exerted forces in axonal
transport . . . . . . . . . . . . . . . 430--437
Elsje Pienaar and
Scott E. Whitney and
Hendrik J. Viljoen and
Nicolaas F. J. van Rensburg A model of the complex response of
Staphylococcus aureus to methicillin . . 438--445
Femke van den Berg and
Frank van den Bosch The presence of generalist plant
pathogens might not explain the
long-term coexistence of plant species 446--453
Jerrome K. Percus and
Ora E. Percus and
Michele Di Mascio The amplitudes of viral blips in HIV-1
infected patients treated with
antiretroviral therapy are power-law
distributed . . . . . . . . . . . . . . 454--459
Elan Gin and
Martin Falcke and
Larry E. Wagner and
David I. Yule and
James Sneyd Markov chain Monte Carlo fitting of
single-channel data from inositol
trisphosphate receptors . . . . . . . . 460--474
Ralph A. Catalano and
Katherine Saxton and
Tim Bruckner and
Sidra Goldman and
Elizabeth Anderson A sex-specific test of selection in
utero . . . . . . . . . . . . . . . . . 475--479
Adriana T. Dawes A mathematical model of $ \alpha
$-catenin dimerization at adherens
junctions in polarized epithelial cells 480--488
Matteo Mossio and
Giuseppe Longo and
John Stewart A computable expression of closure to
efficient causation . . . . . . . . . . 489--498
Rui Xu and
Zhien Ma An HBV model with diffusion and time
delay . . . . . . . . . . . . . . . . . 499--509
Rampal S. Etienne Maximum likelihood estimation of neutral
model parameters for multiple samples
with different degrees of dispersal
limitation . . . . . . . . . . . . . . . 510--514
Gary C. Packard On the use of logarithmic
transformations in allometric analyses 515--518
Andrew J. Kerkhoff and
Brian J. Enquist Multiplicative by nature: Why
logarithmic transformation is necessary
in allometry . . . . . . . . . . . . . . 519--521
H. C. Howland Orbital orientation is not visual
orientation: a comment on ``X-ray Vision
and the evolution of forward-facing
eyes'' by M. A. Changizi and S. Shimojo 522--523
Mark Changizi and
Shinsuke Shimojo Response to H. C. Howland, ``Orbital
orientation is not visual orientation'' 524--525
Piotr H. Pawlowski Corrigendum to ``Mechanokinetic model of
cell membrane: Theoretical analysis of
plasmalemma homeostasis, growth and
division'': [J. Theor. Biol. \bf 249
(2007) 67--76] . . . . . . . . . . . . . 526--526
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 345--526 (7 April 2009) . . . . . ??
J. W. Kim and
J. A. Roberts and
P. A. Robinson Dynamics of epileptic seizures:
Evolution, spreading, and suppression 527--532
Deborah Cromer and
Jaroslav Stark and
Miles P. Davenport Low red cell production may protect
against severe anemia during a malaria
infection --- Insights from modeling . . 533--542
D. J. Irons Logical analysis of the budding yeast
cell cycle . . . . . . . . . . . . . . . 543--559
Xiaoning Qian and
Edward R. Dougherty On the long-run sensitivity of
probabilistic Boolean networks . . . . . 560--577
Ludger Rensing and
Peter Ruoff How can yeast cells decide between three
activated MAP kinase pathways? A model
approach . . . . . . . . . . . . . . . . 578--587
Sergey A. Marakushev and
Ol'ga V. Belonogova The parageneses thermodynamic analysis
of chemoautotrophic CO 2 fixation
archaic cycle components, their
stability and self-organization in
hydrothermal systems . . . . . . . . . . 588--597
C. J. Evans and
R. M. Phillips and
P. F. Jones and
P. M. Loadman and
B. D. Sleeman and
C. J. Twelves and
S. W. Smye A mathematical model of doxorubicin
penetration through multicellular layers 598--608
Casey G. Rothschild The evolution of reciprocity in sizable
human groups . . . . . . . . . . . . . . 609--617
Jian-Yi Yang and
Zhen-Ling Peng and
Zu-Guo Yu and
Rui-Jie Zhang and
Vo Anh and
Desheng Wang Prediction of protein structural classes
by recurrence quantification analysis
based on chaos game representation . . . 618--626
Yoshinari Tanaka and
Masafumi Yoshino Predicting the phenotypic response of
resource-competing communities to
environmental change . . . . . . . . . . 627--641
S. J. van Albada and
P. A. Robinson Mean-field modeling of the basal
ganglia-thalamocortical system. I:
Firing rates in healthy and Parkinsonian
states . . . . . . . . . . . . . . . . . 642--663
S. J. van Albada and
R. T. Gray and
P. M. Drysdale and
P. A. Robinson Mean-field modeling of the basal
ganglia-thalamocortical system. II:
Dynamics of Parkinsonian oscillations 664--688
Benno Woelfing and
Arne Traulsen Stochastic sampling of interaction
partners versus deterministic payoff
assignment . . . . . . . . . . . . . . . 689--695
Daniel John Lawson and
Henrik Jeldtoft Jensen The role of weak selection and high
mutation rates in nearly neutral
evolution . . . . . . . . . . . . . . . 696--703
T. Carletti and
R. Serra and
I. Poli and
M. Villani and
A. Filisetti Corrigendum to ``Sufficient conditions
for emergent synchronization in
protocell models'' [J. Theor. Biol. \bf
254 (2008) 741--751] . . . . . . . . . . 704--704
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 527--704 (21 April 2009) . . . . . ??
A. Golubev How could the Gompertz-Makeham law
evolve . . . . . . . . . . . . . . . . . 1--17
P. Katsaloulis and
T. Theoharis and
A. Provata Long range clustering of
oligonucleotides containing the CG
signal . . . . . . . . . . . . . . . . . 18--26
András Szilágyi and
Géza Meszéna Limiting similarity and niche theory for
structured populations . . . . . . . . . 27--37
Valerie J. Grant and
R. J. Irwin A simple model for adaptive variation in
the sex ratios of mammalian offspring 38--42
Amandine Lurette and
Suzanne Touzeau and
Matieyendou Lamboni and
Hervé Monod Sensitivity analysis to identify key
parameters influencing Salmonella
infection dynamics in a pig batch . . . 43--52
Ignacio Marín and
Sergio Hoyas Basic networks: Definition and
applications . . . . . . . . . . . . . . 53--59
Patrik Sahlin and
Bo Söderberg and
Henrik Jönsson Regulated transport as a mechanism for
pattern generation: Capabilities for
phyllotaxis and beyond . . . . . . . . . 60--70
K. Sriram and
Sylvain Soliman and
François Fages Dynamics of the interlocked positive
feedback loops explaining the robust
epigenetic switching in Candida albicans 71--88
György Barabás and
Géza Meszéna When the exception becomes the rule: The
disappearance of limiting similarity in
the Lotka--Volterra model . . . . . . . 89--94
Mike Steel and
Laszlo Székely and
Elchanan Mossel Phylogenetic information complexity: Is
testing a tree easier than finding it? 95--102
Konstantin G. Arbeev and
Igor Akushevich and
Alexander M. Kulminski and
Liubov S. Arbeeva and
Lucy Akushevich and
Svetlana V. Ukraintseva and
Irina V. Culminskaya and
Anatoli I. Yashin Genetic model for longitudinal studies
of aging, health, and longevity and its
potential application to incomplete data 103--111
Diana David-Rus and
Swagatam Mukhopadhyay and
Joel L. Lebowitz and
Anirvan M. Sengupta Inheritance of epigenetic chromatin
silencing . . . . . . . . . . . . . . . 112--120
Bengt O. Bengtsson and
Nils Cronberg The effective size of bryophyte
populations . . . . . . . . . . . . . . 121--126
António Rodrigues and
Heinz Koeppl and
Hisashi Ohtsuki and
Akiko Satake A game theoretical model of
deforestation in human-environment
relationships . . . . . . . . . . . . . 127--134
G. A. Parker and
M. A. Ball and
J. C. Chubb To grow or not to grow? Intermediate and
paratenic hosts as helminth life cycle
strategies . . . . . . . . . . . . . . . 135--147
Thilo Gross and
Andrew M. Edwards and
Ulrike Feudel The invisible niche: Weakly
density-dependent mortality and the
coexistence of species . . . . . . . . . 148--155
Donald R. Forsdyke Samuel Butler and human long term
memory: Is the cupboard bare? . . . . . 156--164
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 1--164 (7 May 2009) . . . . . . . ??
Monika Joanna Piotrowska and
Simon D. Angus A quantitative cellular automaton model
of in vitro multicellular spheroid
tumour growth . . . . . . . . . . . . . 165--178
Mike S. Fowler Increasing community size and
connectance can increase stability in
competitive communities . . . . . . . . 179--188
Christopher B. Cowan and
Dhara A. Patel and
Theresa A. Good Exploring the mechanism of $ \beta
$-amyloid toxicity attenuation by
multivalent sialic acid polymers through
the use of mathematical models . . . . . 189--197
Michael J. Jeger and
Laurence V. Madden and
Frank van den Bosch The effect of transmission route on
plant virus epidemic development and
disease control . . . . . . . . . . . . 198--207
Roberto da Silva and
Gustavo A. Kellermann and
Luis C. Lamb Statistical fluctuations in population
bargaining in the ultimatum game: Static
and evolutionary aspects . . . . . . . . 208--218
Gerson Florence and
Markus A. Dahlem and
Antônio-Carlos G. Almeida and
José W. M. Bassani and
Jürgen Kurths The role of extracellular potassium
dynamics in the different stages of
ictal bursting and spreading depression:
a computational study . . . . . . . . . 219--228
Anas M. Ababneh The role of polarization interactions in
the wrapping/unwrapping of nucleosomal
DNA around the histone octamer:
Implications to gene regulation . . . . 229--239
Yanni Xiao and
Roger G. Bowers and
Sanyi Tang The effect of delayed host
self-regulation on host-pathogen
population cycles in forest insects . . 240--249
John M. Marshall The effect of gene drive on containment
of transgenic mosquitoes . . . . . . . . 250--265
Shu-Yan Chen and
Jin Xu and
Fernando T. Maestre and
Cheng-Jin Chu and
Gang Wang and
Sa Xiao Beyond dual-lattice models:
Incorporating plant strategies when
modeling the interplay between
facilitation and competition along
environmental severity gradients . . . . 266--273
Omri Allouche and
Ronen Kadmon Demographic analysis of Hubbell's
neutral theory of biodiversity . . . . . 274--280
Tatsuya Uezu and
Sae Kakutani and
Mika Yoshida and
Akino Nakajima and
Takeshi Asao and
Yoshiomi Takagi Novel features of computer-simulated
clonal life of Paramecium caudatum . . . 281--288
Xiaojian Shao and
Yingjie Tian and
Lingyun Wu and
Yong Wang and
Ling Jing and
Naiyang Deng Predicting DNA- and RNA-binding proteins
from sequences with kernel methods . . . 289--293
Xin Liu and
Ya-Pu Zhao Donut-shaped fingerprint in homologous
polypeptide relationships --- a
topological feature related to
pathogenic structural changes in
conformational disease . . . . . . . . . 294--301
J. G. Sumner and
P. D. Jarvis Markov invariants and the isotropy
subgroup of a quartet tree . . . . . . . 302--310
Kieran Smallbone and
Evangelos Simeonidis Flux balance analysis: a geometric
perspective . . . . . . . . . . . . . . 311--315
Roland Schwarz and
Matthias Wolf and
Tobias Müller A probabilistic model of cell size
reduction in Pseudo-nitzschia
delicatissima (Bacillariophyta) . . . . 316--322
Naoki Masuda Directionality of contact networks
suppresses selection pressure in
evolutionary dynamics . . . . . . . . . 323--334
A. G. Rossberg and
H. Matsuda and
T. Amemiya and
K. Itoh Corrigendum to ``Food webs: Experts
consuming families of experts'' [J.
Theor. Biol. \bf 241 (2006) 552--563] 335--335
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 165--336 (21 May 2009) . . . . . . ??
Fabio A. Milner Editorial . . . . . . . . . . . . . . . 337--338
Lucas Del Bianco Faria and
Michel Iskin da Silveira Costa The interplay between predator's prey
preference and environmental
heterogeneity in food web long-term
stability . . . . . . . . . . . . . . . 339--343
Pierre Auger and
Rachid Mchich and
Tanmay Chowdhury and
Gauthier Sallet and
Maurice Tchuente and
Joydev Chattopadhyay Effects of a disease affecting a
predator on the dynamics of a
predator-prey system . . . . . . . . . . 344--351
Samrat Chatterjee and
Marco Isaia and
Ezio Venturino Spiders as biological controllers in the
agroecosystem . . . . . . . . . . . . . 352--362
Marjolein E. Lof and
Maarten de Gee and
Lia Hemerik Odor-mediated aggregation enhances the
colonization ability of
\bionameDrosophila melanogaster . . . . 363--370
M. Marvá and
E. Sánchez and
R. Bravo de la Parra and
L. Sanz Reduction of slow-fast discrete models
coupling migration and demography . . . 371--379
Elise Billoir and
Aloysio da Silva Ferrão-Filho and
Marie Laure Delignette-Muller and
Sandrine Charles DEBtox theory and matrix population
models as helpful tools in understanding
the interaction between toxic
cyanobacteria and zooplankton . . . . . 380--388
Daniel Maxin and
Fabio Augusto Milner The role of sexually abstained groups in
two-sex demographic and epidemic
logistic models with non-linear
mortality . . . . . . . . . . . . . . . 389--402
Norberto Aníbal Maidana and
Hyun Mo Yang Spatial spreading of West Nile Virus
described by traveling waves . . . . . . 403--417
M. Rafikov and
L. Bevilacqua and
A. P. P. Wyse Optimal control strategy of malaria
vector using genetically modified
mosquitoes . . . . . . . . . . . . . . . 418--425
Sébastien Gaucel and
Béatrice Laroche and
Pauline Ezanno and
Elisabeta Vergu and
Suzanne Touzeau Using singular perturbations to reduce
an epidemiological model: Application to
bovine viral diarrhoea virus within-herd
spread . . . . . . . . . . . . . . . . . 426--436
Ivana Horová and
Zdenek Pospísil and
Jirí Zelinka Hazard function for cancer patients and
cancer cell dynamics . . . . . . . . . . 437--443
S. Chareyron and
M. Alamir Mixed immunotherapy and chemotherapy of
tumors: Feedback design and model
updating schemes . . . . . . . . . . . . 444--454
Christine Nazaret and
Margit Heiske and
Kevin Thurley and
Jean-Pierre Mazat Mitochondrial energetic metabolism: a
simplified model of TCA cycle with ATP
production . . . . . . . . . . . . . . . 455--464
Fabiano Ribeiro and
Nestor Caticha Emergence and loss of assortative mating
in sympatric speciation . . . . . . . . 465--477
Miguel González and
Rodrigo Martínez and
Manuel Mota Bisexual branching processes to model
extinction conditions for Y-linked genes 478--488
Anonymous Based on the Talks at the Second
Conference on Computational and
Mathematical Population Dynamics . . . . ??
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anca R\vadulescu and
Kingsley Cox and
Paul Adams Hebbian errors in learning: An analysis
using the Oja model . . . . . . . . . . 489--501
Stefan Braunewell and
Stefan Bornholdt Reliability of regulatory networks and
its evolution . . . . . . . . . . . . . 502--512
Daniele Santoni and
Vincenzo Romano-Spica Comparative genomic analysis by
microbial COGs self-attraction rate . . 513--520
Tommaso Russo and
Paolo Baldi and
Antonio Parisi and
Giuseppe Magnifico and
Stefano Mariani and
Stefano Cataudella Lévy processes and stochastic von
Bertalanffy models of growth, with
application to fish population analysis 521--529
Thomas Alerstam Flight by night or day? Optimal daily
timing of bird migration . . . . . . . . 530--536
Andrew Allstadt and
Thomas Caraco and
G. Korniss Preemptive spatial competition under a
reproduction-mortality constraint . . . 537--549
C. Cosner and
J. C. Beier and
R. S. Cantrell and
D. Impoinvil and
L. Kapitanski and
M. D. Potts and
A. Troyo and
S. Ruan The effects of human movement on the
persistence of vector-borne diseases . . 550--560
Wassim Abou-Jaoudé and
Djomangan A. Ouattara and
Marcelle Kaufman From structure to dynamics: Frequency
tuning in the p53-Mdm2 network: I.
Logical approach . . . . . . . . . . . . 561--577
Sergey Astanin and
Luigi Preziosi Mathematical modelling of the Warburg
effect in tumour cords . . . . . . . . . 578--590
C. J. Rhodes and
T. D. Hollingsworth Variational data assimilation with
epidemic models . . . . . . . . . . . . 591--602
Wendi Wang and
Yasuhiro Takeuchi Adaptation of prey and predators between
patches . . . . . . . . . . . . . . . . 603--613
Tibor Antal and
Arne Traulsen and
Hisashi Ohtsuki and
Corina E. Tarnita and
Martin A. Nowak Mutation-selection equilibrium in games
with multiple strategies . . . . . . . . 614--622
Michael J. Tildesley and
Matt J. Keeling Is $ R_0 $ a good predictor of final
epidemic size: Foot-and-mouth disease in
the UK . . . . . . . . . . . . . . . . . 623--629
Hideo Ezoe and
Nami Washizu Effect of stochasticity in the
availability of pollinators on the
resource allocation within a flower . . 630--636
Koh Hashimoto and
Kazuyuki Aihara Fixation probabilities in evolutionary
game dynamics with a two-strategy game
in finite diploid populations . . . . . 637--645
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 489--646 (21 June 2009) . . . . . ??
Giai Petit and
Tommaso Anfodillo Plant physiology in theory and practice:
An analysis of the WBE model for
vascular plants . . . . . . . . . . . . 1--4
Elizabeth M. Baptestini and
Marcus A. M. de Aguiar and
Daniel I. Bolnick and
Márcio S. Araújo The shape of the competition and
carrying capacity kernels affects the
likelihood of disruptive selection . . . 5--11
Boris Kartascheff and
Christian Guill and
Barbara Drossel Positive complexity-stability relations
in food web models without foraging
adaptation . . . . . . . . . . . . . . . 12--23
József Baranyi and
Susan M. George and
Zoltán Kutalik Parameter estimation for the
distribution of single cell lag times 24--30
J. Krishnan Signal processing through a generalized
module of adaptation and spatial sensing 31--43
Erik B. Muller and
Sebastiaan A. L. M. Kooijman and
Peter J. Edmunds and
Francis J. Doyle and
Roger M. Nisbet Dynamic energy budgets in syntrophic
symbiotic relationships between
heterotrophic hosts and photoautotrophic
symbionts . . . . . . . . . . . . . . . 44--57
Tsuyoshi Hirashima and
Yoh Iwasa and
Yoshihiro Morishita Dynamic modeling of branching
morphogenesis of ureteric bud in early
kidney development . . . . . . . . . . . 58--66
P. Gerlee and
A. R. A. Anderson Evolution of cell motility in an
individual-based model of tumour growth 67--83
Luis G. Moyano and
Angel Sánchez Evolving learning rules and emergence of
cooperation in spatial prisoner's
dilemma . . . . . . . . . . . . . . . . 84--95
S. Rüdiger and
L. Schimansky-Geier Dynamics of excitable elements with
time-delayed coupling . . . . . . . . . 96--100
H. Wu and
J. W. Kim and
P. A. Robinson and
P. M. Drysdale Firing pattern of bursting neurons under
sinusoidal drive in mean-field modeling 101--108
Tamara Münkemüller and
Harald Bugmann and
Karin Johst Hutchinson revisited: Patterns of
density regulation and the coexistence
of strong competitors . . . . . . . . . 109--117
Mathieu Cloutier and
Jingkui Chen and
Frithjof Tatge and
Virginie McMurray-Beaulieu and
Michel Perrier and
Mario Jolicoeur Kinetic metabolic modelling for the
control of plant cells cytoplasmic
phosphate . . . . . . . . . . . . . . . 118--131
Yuta Shiino and
Osamu Kuwazuru and
Nobuhiro Yoshikawa Computational fluid dynamics simulations
on a Devonian spiriferid
\bionameParaspirifer bownockeri
(\bionameBrachiopoda): Generating
mechanism of passive feeding flows . . . 132--141
Nebojsa T. Milosevi\'c and
Dusan Ristanovi\'c and
Herbert F. Jelinek and
Katarina Rajkovi\'c Quantitative analysis of dendritic
morphology of the alpha and delta
retinal ganglion cells in the rat: a
cell classification study . . . . . . . 142--150
Justin M. J. Travis and
Karen Mustin and
Tim G. Benton and
Calvin Dytham Accelerating invasion rates result from
the evolution of density-dependent
dispersal . . . . . . . . . . . . . . . 151--158
Qi-Shi Du and
Ri-Bo Huang and
Cheng-Hua Wang and
Xiao-Ming Li and
Kuo-Chen Chou Energetic analysis of the two
controversial drug binding sites of the
M2 proton channel in influenza A virus 159--164
Zhilan Feng and
Yiding Yang and
Dashun Xu and
Pei Zhang and
\ldots John W. Glasser Timely identification of optimal control
strategies for emerging infectious
diseases . . . . . . . . . . . . . . . . 165--171
Reginald D. Smith Plant-mycorrhiza percent infection as
evidence of coupled metabolism . . . . . 172--175
Aitor González and
Ryoichiro Kageyama Hopf bifurcation in the presomitic
mesoderm during the mouse segmentation 176--189
Sergey V. Brodsky and
Iouri Ivanov Spermatozoa--somatic cell fusion --- a
mechanism for microchimerism formation 190--192
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 1--192 (7 July 2009) . . . . . . . ??
Tze-wai Tam and
Put O. Ang Catastrophic regime shifts in coral
communities exposed to physical
disturbances: Simulation results from
object-oriented $3$-dimensional coral
reef model . . . . . . . . . . . . . . . 193--208
Akiko N. Mizuno and
Masakado Kawata The effects of the evolution of
stoichiometry-related traits on
population dynamics in plankton
communities . . . . . . . . . . . . . . 209--218
Shingo Iwami and
Yasuhiro Takeuchi and
Xianning Liu and
Shinji Nakaoka A geographical spread of
vaccine-resistance in avian influenza
epidemics . . . . . . . . . . . . . . . 219--228
Yovani Marrero-Ponce and
Sadiel E. Ortega-Broche and
Yunaimy Echeverr\'ìa D\'ìaz and
Ysaias J. Alvarado and
Nestor Cubillan and
Gladys Casas Cardoso and
Francisco Torrens and
Facundo Pérez-Giménez Nucleotide's bilinear indices: Novel
bio-macromolecular descriptors for
bioinformatics studies of nucleic acids.
I. Prediction of paromomycin's affinity
constant with HIV-1 $ \Psi $-RNA
packaging region . . . . . . . . . . . . 229--241
Ranjan K. Pradhan and
V. S. Chakravarthy Desynchronized vasomotion and
desynchronized fiber activation pattern
enhance oxygenation in a model of
skeletal muscle . . . . . . . . . . . . 242--252
Murray E. Alexander and
Sarah M. Dietrich and
Yi Hua and
Seyed M. Moghadas A comparative evaluation of modelling
strategies for the effect of treatment
and host interactions on the spread of
drug resistance . . . . . . . . . . . . 253--263
William H. James The variances of the distributions of
the combinations of the sexes within
mammalian litters: Notes to mark the
centenary of the problem . . . . . . . . 264--268
Anca R\vadulescu A multi-etiology model of systemic
degeneration in schizophrenia . . . . . 269--279
Paula Rodrigues and
Alessandro Margheri and
Carlota Rebelo and
M. Gabriela M. Gomes Heterogeneity in susceptibility to
infection can explain high reinfection
rates . . . . . . . . . . . . . . . . . 280--290
Bogdan Kazmierczak and
Tomasz Lipniacki Regulation of kinase activity by
diffusion and feedback . . . . . . . . . 291--296
W. J. N. Fernando Theoretical considerations and modeling
of chemical inactivation of
microorganisms: Inactivation of Giardia
Cysts by free chlorine . . . . . . . . . 297--303
Frédéric Dayan and
Marc Monticelli and
Jacques Pouysségur and
Elisabeth Pécou Gene regulation in response to graded
hypoxia: The non-redundant roles of the
oxygen sensors PHD and FIH in the HIF
pathway . . . . . . . . . . . . . . . . 304--316
N. H. Barton and
J. B. Coe On the application of statistical
physics to evolutionary biology . . . . 317--324
T. Hölttä and
M. Mencuccini and
E. Nikinmaa Linking phloem function to structure:
Analysis with a coupled xylem-phloem
transport model . . . . . . . . . . . . 325--337
Erin R. Higgins and
Heiko Schmidle and
Martin Falcke Waiting time distributions for clusters
of IP3 receptors . . . . . . . . . . . . 338--349
Christian Rode and
Tobias Siebert and
Reinhard Blickhan Titin-induced force enhancement and
force depression: a `sticky-spring'
mechanism in muscle contractions? . . . 350--360
Li Zhang and
Bo Liao and
Dachao Li and
Wen Zhu A novel representation for apoptosis
protein subcellular localization
prediction using support vector machine 361--365
Yu-hong Zeng and
Yan-zhi Guo and
Rong-quan Xiao and
Li Yang and
Le-zheng Yu and
Meng-long Li Using the augmented Chou's pseudo amino
acid composition for predicting protein
submitochondria locations based on auto
covariance approach . . . . . . . . . . 366--372
J. David Logan and
Glenn Ledder and
William Wolesensky Type II functional response for
continuous, physiologically structured
models . . . . . . . . . . . . . . . . . 373--381
F. Di Patti and
D. Fanelli A stochastic reaction scheme for
drug/metabolite interaction . . . . . . 382--388
Jun Nakabayashi and
Akira Sasaki A mathematical model of the
stoichiometric control of Smad complex
formation in TGF-$ \beta $ signal
transduction pathway . . . . . . . . . . 389--403
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 193--404 (21 July 2009) . . . . . ??
M. Welter and
K. Bartha and
H. Rieger Vascular remodelling of an
arterio-venous blood vessel network
during solid tumour growth . . . . . . . 405--422
Diana E. Marco and
Juan P. Carbajal and
Sergio Cannas and
Rebeca Pérez-Arnedo and
Ángeles Hidalgo-Perea and
José Olivares and
José E. Ruiz-Sainz and
Juan Sanjuán An experimental and modelling
exploration of the host-sanction
hypothesis in legume-rhizobia mutualism 423--433
Ping Xie A possible mechanism for the dynamics of
transition between polymerase and
exonuclease sites in a high-fidelity DNA
polymerase . . . . . . . . . . . . . . . 434--439
Francis Corson and
Mokhtar Adda-Bedia and
Arezki Boudaoud In silico leaf venation networks: Growth
and reorganization driven by mechanical
forces . . . . . . . . . . . . . . . . . 440--448
Arvind Santhanakrishnan and
Nhi Nguyen and
Jennifer G. Cox and
Laura A. Miller Flow within models of the vertebrate
embryonic heart . . . . . . . . . . . . 449--461
Alexey Mikaberidze and
Masudul Haque Survival benefits in mimicry: a
quantitative framework . . . . . . . . . 462--468
Gregory J. Howard and
Thomas F. Webster Generalized concentration addition: a
method for examining mixtures containing
partial agonists . . . . . . . . . . . . 469--477
Marco Ajelli and
Stefano Merler An individual-based model of hepatitis A
transmission . . . . . . . . . . . . . . 478--488
R. J. Shipley and
G. W. Jones and
R. J. Dyson and
B. G. Sengers and
\ldots J. Malda Design criteria for a printed tissue
engineering construct: a mathematical
homogenization approach . . . . . . . . 489--502
Alexander Lange and
Reuven Dukas Bayesian approximations and extensions:
Optimal decisions for small brains and
possibly big ones too . . . . . . . . . 503--516
Samad Jahandideh and
Somayyeh Hoseini and
Mina Jahandideh and
Afsaneh Hoseini and
Fatemeh Miri Disfani $ \gamma $-turn types prediction in
proteins using the two-stage hybrid
neural discriminant model . . . . . . . 517--522
Thomas Clerc and
Anthony C. Davison and
Louis-Félix Bersier Stochastic modelling of prey depletion
processes . . . . . . . . . . . . . . . 523--532
Ashish Anand and
P. N. Suganthan Multiclass cancer classification by
support vector machines with class-wise
optimized genes and probability
estimates . . . . . . . . . . . . . . . 533--540
Benjamin J. Binder and
Kerry A. Landman Exclusion processes on a growing domain 541--551
Dan Dediu Genetic biasing through cultural
transmission: Do simple Bayesian models
of language evolution generalise? . . . 552--561
Zuzanna Szyma\'nska and
Maciej Zylicz Mathematical modeling of heat shock
protein synthesis in response to
temperature change . . . . . . . . . . . 562--569
Corina E. Tarnita and
Hisashi Ohtsuki and
Tibor Antal and
Feng Fu and
Martin A. Nowak Strategy selection in structured
populations . . . . . . . . . . . . . . 570--581
Zhi-Ping Mei and
Zoe V. Finkel and
Andrew J. Irwin Light and nutrient availability affect
the size-scaling of growth in
phytoplankton . . . . . . . . . . . . . 582--588
Matthijs van Veelen Group selection, kin selection, altruism
and cooperation: When inclusive fitness
is right and when it can be wrong . . . 589--600
Samraat Pawar Community assembly, stability and
signatures of dynamical constraints on
food web structure . . . . . . . . . . . 601--612
Chaitanya S. Gokhale and
Yoh Iwasa and
Martin A. Nowak and
Arne Traulsen The pace of evolution across fitness
valleys . . . . . . . . . . . . . . . . 613--620
G. Yagil The structural complexity of DNA
templates --- implications on cellular
complexity . . . . . . . . . . . . . . . 621--627
Johanna Weindl and
Zaher Dawy and
Pavol Hanus and
Juergen Zech and
Jakob C. Mueller Modeling promoter search by \bionameE.
coli RNA polymerase: One-dimensional
diffusion in a sequence-dependent energy
landscape . . . . . . . . . . . . . . . 628--634
Jorge M. Pacheco and
Arne Traulsen and
David Dingli The allometry of chronic myeloid
leukemia . . . . . . . . . . . . . . . . 635--640
Yong Kong Calculating complexity of large
randomized libraries . . . . . . . . . . 641--645
Louis G. Zachos A new computational growth model for sea
urchin skeletons . . . . . . . . . . . . 646--657
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 405--658 (7 August 2009) . . . . . ??
R. N. Tchuraev and
A. V. Galimzyanov Gene and epigene networks: Two levels in
organizing the hereditary system . . . . 659--669
Brian V. Merkey and
Bruce E. Rittmann and
David L. Chopp Modeling how soluble microbial products
(SMP) support heterotrophic bacteria in
autotroph-based biofilms . . . . . . . . 670--683
Thomas W. Yee and
Thomas Dirnböck Models for analysing species'
presence/absence data at two time points 684--694
A. Jinha and
R. Ait-Haddou and
M. Kaya and
W. Herzog A task-specific validation of
homogeneous non-linear optimisation
approaches . . . . . . . . . . . . . . . 695--700
Danielle Lyles and
Todd S. Rosenstock and
Alan Hastings and
Patrick H. Brown The role of large environmental noise in
masting: General model and example from
pistachio trees . . . . . . . . . . . . 701--713
Urs Stoecker and
Ivo A. Telley and
Edgar Stüssi and
Jachen Denoth A multisegmental cross-bridge kinetics
model of the myofibril . . . . . . . . . 714--726
Pierre Legendre and
Yves Desdevises Independent contrasts and regression
through the origin . . . . . . . . . . . 727--743
Hideo Ezoe Dual lattice model of the evolution of
facultative symbiosis with continuous
Prisoner's Dilemma game . . . . . . . . 744--750
David Burg and
Libin Rong and
Avidan U. Neumann and
Harel Dahari Mathematical modeling of viral kinetics
under immune control during primary
HIV-1 infection . . . . . . . . . . . . 751--759
Zhongxing Mai and
Haiyan Liu Boolean network-based analysis of the
apoptosis network: Irreversible
apoptosis and stable surviving . . . . . 760--769
Zhao Lu and
Yrjo T. Grohn and
Rebecca L. Smith and
David R. Wolfgang and
Jo Ann S. Van Kessel and
Ynte H. Schukken Assessing the potential impact of
Salmonella vaccines in an endemically
infected dairy herd . . . . . . . . . . 770--784
Javier Urzay and
Stefan G. Llewellyn Smith and
Elinor Thompson and
Beverley J. Glover Wind gusts and plant aeroelasticity
effects on the aerodynamics of pollen
shedding: a hypothetical
turbulence-initiated wind-pollination
mechanism . . . . . . . . . . . . . . . 785--792
Hsiuying Wang and
Wen-Hsiung Li Increasing MicroRNA target prediction
confidence by the relative $ R^2 $
method . . . . . . . . . . . . . . . . . 793--798
Z. Patwa and
L. M. Wahl The impact of host-cell dynamics on the
fixation probability for lytic viruses 799--810
Jianyong Huang and
Lei Qin and
Xiaoling Peng and
Tao Zhu and
Chunyang Xiong and
Youyi Zhang and
Jing Fang Cellular traction force recovery: An
optimal filtering approach in
two-dimensional Fourier space . . . . . 811--819
Badal Joshi and
Xueying Wang and
Sayanti Banerjee and
Haiyan Tian and
Anastasios Matzavinos and
Mark A. J. Chaplain On immunotherapies and cancer
vaccination protocols: a mathematical
modelling approach . . . . . . . . . . . 820--827
Sheng-Nan Wu and
Bing-Shuo Chen and
Tai-I Hsu and
Hsung Peng and
Yung-Han Wu and
Yi-Ching Lo Analytical studies of rapidly
inactivating and noninactivating sodium
currents in differentiated NG108-15
neuronal cells . . . . . . . . . . . . . 828--836
N. J. Warren and
M. H. Tawhai and
E. J. Crampin A mathematical model of calcium-induced
fluid secretion in airway epithelium . . 837--849
Inma R. Cantalapiedra and
Angelina Peñaranda and
Lluis Mont and
Josep Brugada and
Blas Echebarria Reexcitation mechanisms in epicardial
tissue: Role of $ I_{\rm to} $ density
heterogeneities and I$_{\rm Na}$
inactivation kinetics . . . . . . . . . 850--859
Brian K. Davis On mapping the genetic code . . . . . . 860--862
Michael J. Tildesley and
Matt J. Keeling Corrigendum to ``Is $ R_0 $ a good
predictor of final epidemic size:
Foot-and-mouth disease in the UK'': [J.
Theor. Biol. 258 (2009) 623--629] . . . 863--863
Monika Joanna Piotrowska and
Simon D. Angus Corrigendum to ``A quantitative cellular
automaton model of in vitro
multicellular spheroid tumour growth''
[J. Theor. Biol. \bf 258 (2009)
165--178] . . . . . . . . . . . . . . . 864--864
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 659--864 (21 August 2009) . . . . ??
Pedro Moreo and
José Manuel García-Aznar and
Manuel Doblaré Bone ingrowth on the surface of
endosseous implants. Part 1:
Mathematical model . . . . . . . . . . . 1--12
Pedro Moreo and
José Manuel García-Aznar and
Manuel Doblaré Bone ingrowth on the surface of
endosseous implants. Part 2: Theoretical
and numerical analysis . . . . . . . . . 13--26
Dooyoung Lee and
Kelly E. Caputo and
Daniel A. Hammer and
Michael R. King Adhesive dynamics simulations of the
mechanical shedding of L-selectin from
the neutrophil surface . . . . . . . . . 27--30
Piero Poletti and
Bruno Caprile and
Marco Ajelli and
Andrea Pugliese and
Stefano Merler Spontaneous behavioural changes in
response to epidemics . . . . . . . . . 31--40
A. M. Middleton and
J. R. King and
M. Loose Bistability in a model of mesoderm and
anterior mesendoderm specification in
Xenopus laevis . . . . . . . . . . . . . 41--55
Kenichi Nakazato and
Atsushi Mochizuki Steepness of thermal gradient is
essential to obtain a unified view of
thermotaxis in \bionameC. elegans . . . 56--65
Andre S. Ribeiro and
Xiaofeng Dai and
Olli Yli-Harja Variability of the distribution of
differentiation pathway choices
regulated by a multipotent delayed
stochastic switch . . . . . . . . . . . 66--76
Massimo Di Giulio A methanogen hosted the origin of the
genetic code . . . . . . . . . . . . . . 77--82
Simone Pigolotti and
Massimo Cencini Speciation-rate dependence in
species-area relationships . . . . . . . 83--89
Mariko Kimura and
Yasuo Ihara Replicator-dynamics models of sexual
conflict . . . . . . . . . . . . . . . . 90--97
A. M. Reynolds and
F. Bartumeus Optimising the success of random
destructive searches: Lévy walks can
outperform ballistic motions . . . . . . 98--103
Zhao-Hui Qi and
Jian-Min Wang and
Xiao-Qin Qi Classification analysis of dual
nucleotides using dimension reduction 104--109
Jason Zwolak and
Nassiba Adjerid and
Elife Z. Bagci and
John J. Tyson and
Jill C. Sible A quantitative model of the effect of
unreplicated DNA on cell cycle
progression in frog egg extracts . . . . 110--120
Sébastien Lion Relatedness in spatially structured
populations with empty sites: An
approach based on spatial moment
equations . . . . . . . . . . . . . . . 121--131
Robert L. Unckless and
Jeremy K. Herren Population genetics of sexually
antagonistic mitochondrial mutants under
inbreeding . . . . . . . . . . . . . . . 132--136
Sean X. Sun and
Brenda Farrell and
Matthew S. Chana and
George Oster and
William E. Brownell and
Alexander A. Spector Voltage and frequency dependence of
prestin-associated charge transfer . . . 137--144
Krzysztof Mogielski and
Tadeusz Platkowski A mechanism of dynamical interactions
for two-person social dilemmas . . . . . 145--150
Marco Scianna and
Roeland M. H. Merks and
Luigi Preziosi and
Enzo Medico Individual cell-based models of cell
scatter of ARO and MLP-29 cells in
response to hepatocyte growth factor . . 151--160
Shinji Nakaoka and
Wendi Wang and
Yasuhiro Takeuchi Effect of parental care and aggregation
on population dynamics . . . . . . . . . 161--171
Robert W. Korn A new hypothesis for stomatal placement
in Arabidopsis . . . . . . . . . . . . . 172--174
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 1--174 (7 September 2009) . . . . ??
Virginia E. Pitzer and
Marc Lipsitch Exploring the relationship between
incidence and the average age of
infection during seasonal epidemics . . 175--185
Josh Mitteldorf and
John Pepper Senescence as an adaptation to limit the
spread of disease . . . . . . . . . . . 186--195
L. Tournier and
M. Chaves Uncovering operational interactions in
genetic networks using asynchronous
Boolean dynamics . . . . . . . . . . . . 196--209
Jeremy Kendal and
Luc-Alain Giraldeau and
Kevin Laland The evolution of social learning rules:
Payoff-biased and frequency-dependent
biased transmission . . . . . . . . . . 210--219
Eunok Jung and
Shingo Iwami and
Yasuhiro Takeuchi and
Tae-Chang Jo Optimal control strategy for prevention
of avian influenza pandemic . . . . . . 220--229
Andreas Fritsch and
Christian Hellmich and
Luc Dormieux Ductile sliding between mineral crystals
followed by rupture of collagen
crosslinks: Experimentally supported
micromechanical explanation of bone
strength . . . . . . . . . . . . . . . . 230--252
Joost C. M. Uitdehaag The dependency game: Multiperson
reciprocal sharing leads to stable
cooperation which can evolve into group
formation . . . . . . . . . . . . . . . 253--260
Yasunori Ohtsuka and
Yukihiko Toquenaga The patch distributed producer-scrounger
game . . . . . . . . . . . . . . . . . . 261--266
Edwin H. Battley Is electron equivalence between
substrate and product preferable to
C-mol equivalence in representations of
microbial anabolism applicable to
``origin of life'' environmental
conditions? . . . . . . . . . . . . . . 267--275
Roger Härdling and
Kristina Karlsson The dynamics of sexually antagonistic
coevolution and the complex influences
of mating system and genetic correlation 276--282
Guido Dell'Acqua and
Filippo Castiglione Stability and phase transitions in a
mathematical model of Duchenne muscular
dystrophy . . . . . . . . . . . . . . . 283--289
Mareike Fischer and
Bhalchandra D. Thatte Maximum parsimony on subsets of taxa . . 290--293
Ilan Gronau and
Shlomo Moran and
Irad Yavneh Towards optimal distance functions for
stochastic substitution models . . . . . 294--307
Libin Rong and
Alan S. Perelson Modeling HIV persistence, the latent
reservoir, and viral blips . . . . . . . 308--331
Maxim Lavrentovich and
Sheryl Hemkin Corrigendum to ``A mathematical model of
spontaneous calcium(II) oscillations in
astrocytes'' [J. Theor. Biol. \bf 251
(2008) 553--560] . . . . . . . . . . . . 332--332
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 175--332 (21 September 2009) . . . ??
Jure Derganc and
Sasa Svetina and
Bostjan Zeks Equilibrium mechanics of monolayered
epithelium . . . . . . . . . . . . . . . 333--339
Mukhtar Ullah and
Olaf Wolkenhauer Investigating the two-moment
characterisation of subcellular
biochemical networks . . . . . . . . . . 340--352
Masayuki Koganezawa and
Hiroaki Hara and
Yoshinori Hayakawa and
Ichiro Shimada Memory effects on scale-free dynamics in
foraging Drosophila . . . . . . . . . . 353--358
Yangjin Kim and
Sean Lawler and
Micha\l O. Nowicki and
E. Antonio Chiocca and
Avner Friedman A mathematical model for pattern
formation of glioma cells outside the
tumor spheroid core . . . . . . . . . . 359--371
Anna Fedor and
Vera Vasas The robustness of keystone indices in
food webs . . . . . . . . . . . . . . . 372--378
Matthew G. Burgess Sub-optimal pit construction in
predatory ant lion larvae
(\bionameMyrmeleon sp.) . . . . . . . . 379--385
James A. R. Marshall The donation game with roles played
between relatives . . . . . . . . . . . 386--391
Koichi Saeki and
Yoh Iwasa Advantage of having regulatory T cells
requires localized suppression of immune
reactions . . . . . . . . . . . . . . . 392--401
Mathieu Moslonka-Lefebvre and
Marco Pautasso and
Mike J. Jeger Disease spread in small-size directed
networks: Epidemic threshold,
correlation between links to and from
nodes, and clustering . . . . . . . . . 402--411
Andreea Munteanu and
Peter F. Stadler Mutate now, die later. Evolutionary
dynamics with delayed selection . . . . 412--421
Ivan V. Surovtsev and
Zhigang Zhang and
Paul A. Lindahl and
Jeffrey J. Morgan Mathematical modeling of a minimal
protocell with coordinated growth and
division . . . . . . . . . . . . . . . . 422--429
Satoki Sakai and
Tomomi Kojima Overproduction and selective abortion of
ovules based on the order of
fertilization revisited . . . . . . . . 430--437
Zakharia M. Frenkel and
Zeev M. Frenkel and
Edward N. Trifonov and
Sagi Snir Structural relatedness via flow networks
in protein sequence space . . . . . . . 438--444
Ettore Murabito and
Evangelos Simeonidis and
Kieran Smallbone and
Jonathan Swinton Capturing the essence of a metabolic
network: a flux balance analysis
approach . . . . . . . . . . . . . . . . 445--452
Kiyoshi Ito and
Satoki Sakai Optimal defense strategy against
herbivory in plants: Conditions
selecting for induced defense,
constitutive defense, and no-defense . . 453--459
G. A. Parker and
M. A. Ball and
J. C. Chubb Why do larval helminths avoid the gut of
intermediate hosts? . . . . . . . . . . 460--473
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 333--474 (7 October 2009) . . . . ??
Dmitriy Laschov and
Michael Margaliot Mathematical modeling of the lambda
switch: a fuzzy logic approach . . . . . 475--489
Shingo Iwami and
Tomoyuki Miura and
Shinji Nakaoka and
Yasuhiro Takeuchi Immune impairment in HIV infection:
Existence of risky and immunodeficiency
thresholds . . . . . . . . . . . . . . . 490--501
Hongjian Guo and
Lansun Chen Periodic solution of a chemostat model
with Monod growth rate and impulsive
state feedback control . . . . . . . . . 502--509
Linda J. S. Allen and
Curtis L. Wesley and
Robert D. Owen and
Douglas G. Goodin and
David Koch and
Colleen B. Jonsson and
Yong-Kyu Chu and
J. M. Shawn Hutchinson and
Robert L. Paige A habitat-based model for the spread of
hantavirus between reservoir and
spillover species . . . . . . . . . . . 510--522
Won-Kap Kim and
Jin Hwan Ko and
Hoon Cheol Park and
Doyoung Byun Effects of corrugation of the dragonfly
wing on gliding performance . . . . . . 523--530
Ch. Darabos and
M. Tomassini and
M. Giacobini Dynamics of unperturbed and noisy
generalized Boolean networks . . . . . . 531--544
Frédérique Billy and
Benjamin Ribba and
Olivier Saut and
Hél\`ene Morre-Trouilhet and
Thierry Colin and
Didier Bresch and
Jean-Pierre Boissel and
Emmanuel Grenier and
Jean-Pierre Flandrois A pharmacologically based multiscale
mathematical model of angiogenesis and
its use in investigating the efficacy of
a new cancer treatment strategy . . . . 545--562
Liene Daukste and
Britta Basse and
Bruce C. Baguley and
David J. N. Wall Using a stem cell and progeny model to
illustrate the relationship between cell
cycle times of in vivo human tumour cell
tissue populations, in vitro primary
cultures and the cell lines derived from
them . . . . . . . . . . . . . . . . . . 563--571
J. F. Selgrade and
L. A. Harris and
R. D. Pasteur A model for hormonal control of the
menstrual cycle: Structural consistency
but sensitivity with regard to data . . 572--580
Max O. Souza and
Jorge M. Pacheco and
Francisco C. Santos Evolution of cooperation under
$N$-person snowdrift games . . . . . . . 581--588
David V. Foster and
Jacob G. Foster and
Sui Huang and
Stuart A. Kauffman A model of sequential branching in
hierarchical cell fate determination . . 589--597
Björn F. C. Kafsack and
Vern B. Carruthers and
Fernando J. Pineda Erratum to ``Kinetic modeling of
Toxoplasma gondii invasion'' [J. Theor.
Biol. \bf 249 (2007) 817--825] . . . . . 598--598
C. J. Rhodes and
T. D. Hollingsworth Corrigendum to ``Variational data
assimilation with epidemic models'' [J.
Theor. Biol. \bf 258 (2009) 591--602] 599--599
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 475--600 (21 October 2009) . . . . ??
Max R. Bennett and
Les Farnell and
William G. Gibson P2X7 regenerative-loop potentiation of
glutamate synaptic transmission by
microglia and astrocytes . . . . . . . . 1--16
Yunfei Pei and
Xi Wang and
Xuegong Zhang Predicting the fate of microRNA target
genes based on sequence features . . . . 17--22
Zuxiong Li and
Tieying Wang and
Lansun Chen Periodic solution of a chemostat model
with Beddington-DeAnglis uptake function
and impulsive state feedback control . . 23--32
Ning Li and
Kiranmoy Das and
Rongling Wu Functional mapping of human growth
trajectories . . . . . . . . . . . . . . 33--42
Yasuhiro Imafuku and
Neil Thomas and
Katsuhisa Tawada Hopping and stalling of processive
molecular motors . . . . . . . . . . . . 43--49
Corina E. Tarnita and
Tibor Antal and
Martin A. Nowak Mutation-selection equilibrium in games
with mixed strategies . . . . . . . . . 50--57
Tanja Stadler On incomplete sampling under birth-death
models and connections to the
sampling-based coalescent . . . . . . . 58--66
Shelby H. Steinmeyer and
Claus O. Wilke Lethal mutagenesis in a structured
environment . . . . . . . . . . . . . . 67--73
Atsushi Yamauchi and
Takaaki Nishida and
Takayuki Ohgushi Stochastic tunneling in the colonization
of mutualistic organisms: Primary
succession by mycorrhizal plants . . . . 74--82
Mahmut Ozer and
Muhammet Uzuntarla and
Matjaz Perc and
Lyle J. Graham Spike latency and jitter of neuronal
membrane patches with stochastic
Hodgkin--Huxley channels . . . . . . . . 83--92
Huai Cao and
Hua-Zhen Xie and
Wen Zhang and
Kan Wang and
Wei Li and
Ci-Quan Liu Dynamic extended folding: Modeling the
RNA secondary structures during
co-transcriptional folding . . . . . . . 93--99
Rodrigo Gouveia-Oliveira and
Anders Gorm Pedersen Higher variability in the number of
sexual partners in males can contribute
to a higher prevalence of sexually
transmitted diseases in females . . . . 100--106
Maria-Josefina Hernandez Disentangling nature, strength and
stability issues in the characterization
of population interactions . . . . . . . 107--119
Peter Donnell and
Stephen A. Baigent and
Murad Banaji Monotone dynamics of two cells
dynamically coupled by a
voltage-dependent gap junction . . . . . 120--125
Javier Macía and
Stefanie Widder and
Ricard Solé Why are cellular switches Boolean?
General conditions for multistable
genetic circuits . . . . . . . . . . . . 126--135
H. González-D\'ìaz and
L. G. Pérez-Montoto and
A. Duardo-Sanchez and
E. Paniagua and
S. Vázquez-Prieto and
R. Vilas and
M. A. Dea-Ayuela and
F. Bolas-Fernández and
C. R. Munteanu and
J. Dorado and
J. Costas and
F. M. Ubeira Generalized lattice graphs for
2D-visualization of biological
information . . . . . . . . . . . . . . 136--147
Jacobo Aguirre and
Ester Lázaro and
Susanna C. Manrubia A trade-off between neutrality and
adaptability limits the optimization of
viral quasispecies . . . . . . . . . . . 148--155
Jun Nakabayashi and
Akira Sasaki The function of temporally ordered viral
gene expression in the intracellular
replication of herpes simplex virus type
1 (HSV-1) . . . . . . . . . . . . . . . 156--164
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 1--164 (7 November 2009) . . . . . ??
A. B. Strathe and
H. Sòrensen and
A. Danfær A new mathematical model for combining
growth and energy intake in animals: The
case of the growing pig . . . . . . . . 165--175
Thimo Rohlf and
Stefan Bornholdt Morphogenesis by coupled regulatory
networks: Reliable control of positional
information and proportion regulation 176--193
René Lefever and
Nicolas Barbier and
Pierre Couteron and
Olivier Lejeune Deeply gapped vegetation patterns: On
crown/root allometry, criticality and
desertification . . . . . . . . . . . . 194--209
Raghavendra P. Kukillaya and
Philip Holmes A model for insect locomotion in the
horizontal plane: Feedforward activation
of fast muscles, stability, and
robustness . . . . . . . . . . . . . . . 210--226
David Finnoff and
John Tschirhart Plant competition and exclusion with
optimizing individuals . . . . . . . . . 227--237
Joseph Lachance Inbreeding, pedigree size, and the most
recent common ancestor of humanity . . . 238--247
Thanneer M. Perumal and
Yan Wu and
Rudiyanto Gunawan Dynamical analysis of cellular networks
based on the Green's function matrix . . 248--259
Mark M. Tanaka and
Scott A. Sisson and
Garry C. King High affinity extremes in combinatorial
libraries and repertoires . . . . . . . 260--265
P. Blavy and
F. Gondret and
H. Guillou and
S. Lagarrigue and
P. G. P. Martin and
J. van Milgen and
O. Radulescu and
A. Siegel A minimal model for hepatic fatty acid
balance during fasting: Application to
PPAR alpha-deficient mice . . . . . . . 266--278
Alexis Mari Pietak Describing long-range patterns in leaf
vasculature by metaphoric fields . . . . 279--289
Xi Li and
Bo Liao and
Yu Shu and
Qingguang Zeng and
Jiawei Luo Protein functional class prediction
using global encoding of amino acid
sequence . . . . . . . . . . . . . . . . 290--293
Peter A. Abrams Adaptive changes in prey vulnerability
shape the response of predator
populations to mortality . . . . . . . . 294--304
Igor Shuryak and
David J. Brenner A model of interactions between
radiation-induced oxidative stress,
protein and DNA damage in Deinococcus
radiodurans . . . . . . . . . . . . . . 305--317
Patricia Schenker and
Antonio Baici Simultaneous interaction of enzymes with
two modifiers: Reappraisal of kinetic
models and new paradigms . . . . . . . . 318--329
Pufeng Du and
Shengjiao Cao and
Yanda Li SubChlo: Predicting protein
subchloroplast locations with
pseudo-amino acid composition and the
evidence-theoretic $k$-nearest neighbor
(ET-KNN) algorithm . . . . . . . . . . . 330--335
T. Preece and
Y. Mao Sustainability of dioecious and
hermaphrodite populations on a lattice 336--340
Ha Youn Lee and
Elena E. Giorgi and
Brandon F. Keele and
Brian Gaschen and
Gayathri S. Athreya and
Jesus F. Salazar-Gonzalez and
Kimmy T. Pham and
Paul A. Goepfert and
J. Michael Kilby and
Michael S. Saag and
Eric L. Delwart and
Michael P. Busch and
Beatrice H. Hahn and
George M. Shaw and
Bette T. Korber and
Tanmoy Bhattacharya and
Alan S. Perelson Modeling sequence evolution in acute
HIV-1 infection . . . . . . . . . . . . 341--360
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 165--360 (21 November 2009) . . . ??
S. Esposito and
V. Botte and
D. Iudicone and
M. Ribera d'Alcala' Numerical analysis of cumulative impact
of phytoplankton photoresponses to light
variation on carbon assimilation . . . . 361--371
Peter Aerts and
Sandra Nauwelaerts Environmentally induced mechanical
feedback in locomotion: Frog performance
as a model . . . . . . . . . . . . . . . 372--378
Lasse Ruokolainen and
Esa Ranta and
Veijo Kaitala and
Mike S. Fowler Community stability under different
correlation structures of species'
environmental responses . . . . . . . . 379--387
Oleg V. Belov and
Evgeny A. Krasavin and
Alexander Yu. Parkhomenko Model of SOS-induced mutagenesis in
bacteria \bionameEscherichia coli under
ultraviolet irradiation . . . . . . . . 388--395
A. Yu. Khrennikov and
S. V. Kozyrev $2$-Adic clustering of the PAM matrix 396--406
Robert P. Bywater Membrane-spanning peptides and the
origin of life . . . . . . . . . . . . . 407--413
Adam Lampert and
Tsvi Tlusty Mutability as an altruistic trait in
finite asexual populations . . . . . . . 414--422
David W. Crowder and
Yves Carri\`ere Comparing the refuge strategy for
managing the evolution of insect
resistance under different reproductive
strategies . . . . . . . . . . . . . . . 423--430
K. Janko and
J. Eisner Sperm-dependent parthenogens delay the
spatial expansion of their sexual hosts 431--440
Xiaofeng Dai and
Shannon Healy and
Olli Yli-Harja and
Andre S. Ribeiro Tuning cell differentiation patterns and
single cell dynamics by regulating
proteins' functionalities in a toggle
switch . . . . . . . . . . . . . . . . . 441--448
Santiago Vilar and
Humberto González-Díaz and
Lourdes Santana and
Eugenio Uriarte A network-QSAR model for prediction of
genetic-component biomarkers in human
colorectal cancer . . . . . . . . . . . 449--458
Jia-Feng Yu and
Xiao Sun and
Ji-Hua Wang TN curve: a novel 3D graphical
representation of DNA sequence based on
trinucleotides and its applications . . 459--468
M. K. Unnikrishnan How is the individuality of a face
recognized? . . . . . . . . . . . . . . 469--474
Marco Archetti The volunteer's dilemma and the optimal
size of a social group . . . . . . . . . 475--480
Cang Hui On the scaling patterns of species
spatial distribution and association . . 481--487
Tibor Antal and
P. L. Krapivsky and
S. Redner Shepherd model for knot-limited polymer
ejection from a capsid . . . . . . . . . 488--493
Sang Koo You and
Dae Hyuk Kwon and
Yong-ik Park and
Sun Myong Kim and
Myung-Hoon Chung and
Chul Koo Kim Collective behaviors of two-component
swarms . . . . . . . . . . . . . . . . . 494--500
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 361--500 (7 December 2009) . . . . ??
B. H. Lemasson and
J. J. Anderson and
R. A. Goodwin Collective motion in animal groups from
a neurobiological perspective: The
adaptive benefits of dynamic sensory
loads and selective attention . . . . . 501--510
A. Polynikis and
S. J. Hogan and
M. di Bernardo Comparing different ODE modelling
approaches for gene regulatory networks 511--530
Peter van der Gulik and
Serge Massar and
Dimitri Gilis and
Harry Buhrman and
Marianne Rooman The first peptides: The evolutionary
transition between prebiotic amino acids
and early proteins . . . . . . . . . . . 531--539
Golnaz Vahedi and
Babak Faryabi and
Jean-Francois Chamberland and
Aniruddha Datta and
Edward R. Dougherty Sampling-rate-dependent probabilistic
Boolean networks . . . . . . . . . . . . 540--547
David J. Gerberry Trade-off between BCG vaccination and
the ability to detect and treat latent
tuberculosis . . . . . . . . . . . . . . 548--560
Federico Prado and
Alyssa Sheih and
Jevin D. West and
Benjamin Kerr Coevolutionary cycling of host sociality
and pathogen virulence in contact
networks . . . . . . . . . . . . . . . . 561--569
Dominik Szczerba and
Haymo Kurz and
Gabor Szekely A computational model of intussusceptive
microvascular growth and remodeling . . 570--583
D. Rios-Doria and
G. Chowell Qualitative analysis of the level of
cross-protection between epidemic waves
of the 1918--1919 influenza pandemic . . 584--592
Xin Liu and
Ya-Pu Zhao A scheme for multiple sequence alignment
optimization --- an improvement based on
family representative mechanics features 593--597
J. Schmitt and
S. Bonnono Dynamics and stability of lateral plane
locomotion on inclines . . . . . . . . . 598--609
C. A. Chung and
Chih-Yuan Chen The effect of cell sedimentation on
measuring chondrocyte population
migration using a Boyden chamber . . . . 610--625
Matthew Thomson and
Jeremy Gunawardena The rational parameterisation theorem
for multisite post-translational
modification systems . . . . . . . . . . 626--636
Morry Silberstein The cutaneous intrinsic visceral
afferent nervous system: a new model for
acupuncture analgesia . . . . . . . . . 637--642
V. R. Chechetkin and
V. V. Lobzin Local stability and evolution of the
genetic code . . . . . . . . . . . . . . 643--653
Anonymous Editorial Board . . . . . . . . . . . . ifc--ifc
Anonymous Pages 501--654 (21 December 2009) . . . ??
Jinzhi Lei Corrigendum to: ``Stochasticity in
single gene expression with both
intrinsic noise and fluctuation in
kinetic parameters'' [J. Theor. Biol.
\bf 256 (2009) 485--492] . . . . . . . . 381--381
C. J. Evans and
R. M. Phillips and
P. F. Jones and
P. M. Loadman and
B. D. Sleeman and
C. J. Twelves and
S. W. Smye Corrigendum to ``A mathematical model of
doxorubicin penetration through
multicellular layers'' [J. Theor. Biol.
\bf 257 (2009) 598--608] . . . . . . . . 235--235
Liene Daukste and
Britta Basse and
Bruce C. Baguley and
David J. N. Wall Corrigendum to ``Using a stem cell and
progeny model to illustrate the
relationship between cell cycle times of
in vivo human tumour cell tissue
populations, in vitro primary cultures
and the cell lines derived from them''
[J. Theor. Biol. \bf 260 (2009)
563--571] . . . . . . . . . . . . . . . 269--269
Ha Youn Lee and
Elena E. Giorgi and
Brandon F. Keele and
Brian Gaschen and
Gayathri S. Athreya and
Jesus F. Salazar-Gonzalez and
Kimmy T. Pham and
Paul A. Goepfert and
J. Michael Kilby and
Michael S. Saag and
Eric L. Delwart and
Michael P. Busch and
Beatrice H. Hahn and
George M. Shaw and
Bette T. Korber and
Tanmoy Bhattacharya and
Alan S. Perelson Corrigendum to ``Modeling sequence
evolution in acute HIV-1 infection'' [J.
Theor. Biol. \bf 261 (2009) 341--360] 187--187
Cenk Sumen and
Timothy E. Reddy and
Mark S. Alber and
Peter P. Lee Corrigendum to: ``Agent-based modeling
of the context dependency in T cell
recognition'' [J. Theor. Biol. \bf 236
(2005) 376--391] . . . . . . . . . . . . 152--153
Zhongxing Mai and
Haiyan Liu Corrigendum to ``Boolean network-based
analysis of the apoptosis network:
Irreversible apoptosis and stable
surviving'' [J. Theor. Biol. \bf 259 (4)
(2009) 760--769] . . . . . . . . . . . . 217--217