Journal of Theoretical Biology

Article	Citations
The eco-evolutionary modelling of populations and their traits using a measure of trait differentiation	114
Using geometry to rank evenness measures: Towards a deeper understanding of divergence	71
Editorial Board	60
Modeling the response of homogeneous and heterogeneous cerebral capillary networks to local changes in vessel diameters	44
Editorial Board	43
Modeling the influence of cell–cell contact and TGF-β signaling on the epithelial mesenchymal transition in MCF7 breast carcinoma cells	42
Editorial Board	40
Editorial Board	39
A mathematical model to evaluate the role of memory B and T cells in heterologous secondary dengue infection	37
Cell size homeostasis under the circadian regulation of cell division in cyanobacteria	37
A dynamical model for the origin of anisogamy	35
Internal phosphorus recycling promotes rich and complex dynamics in an algae-phosphorus model: Implications for eutrophication management	33
Poacher-population dynamics when legal trade of naturally deceased organisms funds anti-poaching enforcement	29
An integrated vertex model of the mesoderm invagination during the embryonic development of Drosophila	29
Evolution of mixed mating: Effects of among-parent variation in early-acting inbreeding depression coupled with overproduction of ovules	28
Resource budget model with Duffing oscillator for dynamics of synchronized biennial-bearing olives in the Levant	28
Second compartment widens plasmid invasion conditions: Two-compartment pair-formation model of conjugation in the gut	28
Learning to hunt: A data-driven stochastic feedback control model of predator–prey interactions	28
A framework for relating natural movement to length and quality of life in human and non-human animals	27
Topological early warning signals: Quantifying varying routes to extinction in a spatially distributed population model	24
LRBmat: A novel gut microbial interaction and individual heterogeneity inference method for colorectal cancer	24
The impact of codon choice on translation process in Saccharomyces cerevisiae: folding class, protein function and secondary structure	23
Deciphering circulating tumor cells binding in a microfluidic system thanks to a parameterized mathematical model	22
Linking the disease transmission to information dissemination dynamics: An insight from a multi-scale model study	22
In Remembrance: Professor Lewis Wolpert	21

Modelling uniaxial non-uniform yeast colony growth: Comparing an agent-based model and continuum approximations	21
A model of tubulin removal and exchange caused by kinesin motor walking on microtubule lattices	20
Lewy body radius growth: The hypothesis of the cube root of time dependency	18
Identifiability and inference of phylogenetic birth–death models	18
The role of alcohol consumption on acetaminophen induced liver injury: Implications from a mathematical model	18
Nonlinear thermodynamics of biological signal transduction for predicting conservation of entropy production rate	18
Computational modeling implicates protein scaffolding in p38 regulation of Akt	18
Social context modulates scale-free movements in a social insect	18
Editorial Board	17
The relative importance of social information use for population abundance in group-living and non-grouping prey	17
Editorial Board	17
The central role of host reproduction in determining the evolution of virulence in spatially structured populations	17
Genomic compliance with Chargaff’s second parity rule may have originated non-adaptively, but stem-loops now function adaptively	17
Separation of evolutionary timescales in coevolving species	16
Rules of nature’s Formula Run: Muscle mechanics during late stance is the key to explaining maximum running speed	16
Maintaining the proliferative cell niche in multicellular models of epithelia	15
Exploring COVID-19 transmission patterns and key factors during epidemics caused by three major strains in Asia	15
A direct comparison of methods for assessing the threat from emerging infectious diseases in seasonally varying environments	15
Inference on the structure of gene regulatory networks	15
Network-based uncertainty quantification for mathematical models in epidemiology	15
A novel cost framework reveals evidence for competitive selection in the evolution of complex traits during plant domestication	14
Unraveling the origin of glucose mediated disparate proliferation dynamics of cancer stem cells	14
Branching architecture affects genetic diversity within an individual tree	14
Impact of intervention on the spread of COVID-19 in India: A model based study	14
SIRS epidemics with individual heterogeneity of immunity waning	14
Multiple cohort study of hospitalized SARS-CoV-2 in-host infection dynamics: Parameter estimates, identifiability, sensitivity and the eclipse phase profile	14
Peripheral straightness leads to shape diversification during formations of entire leaves	14
An approximate solution of the SLIP model under the regime of linear angular dynamics during stance and the stability of symmetric periodic running gaits	14
The influence of prey availability on behavioral decisions and reproductive success of a central-place forager during lactation	13
Editorial Board	13
Humeri under external load: Mechanical implications of differing bone curvature in American otter and honey badger	13
A model of time-dependent macromolecular and elemental composition of phytoplankton	13
Cargo transport properties are enhanced by cylindrical microtubule geometry and elliptical contact zone on cargo surface	13
Editorial Board	13
Is the scalar property of interval timing preserved after hippocampus lesions?	13
Evolutionary game dynamics with non-uniform interaction rates in finite population	13
Phenotypic variation modulates the growth dynamics and response to radiotherapy of solid tumours under normoxia and hypoxia	13
The long term effects of uncoupling interventions as a therapy for dementia in humans	13
Sisyphus and his rock: Quasi-random walk inspired by the motion of a ball transported by a dung beetle on combined terrain	13
Coevolution of the reckless prey and the patient predator	12
Bidirectional, unlike unidirectional transport, allows transporting axonal cargos against their concentration gradient	12
A mathematical model of the within-host kinetics of SARS-CoV-2 neutralizing antibodies following COVID-19 vaccination	12
Spatial dynamics of inflammation-causing and commensal bacteria in the gastrointestinal tract	12
Editorial Board	12
Calcium-dependent insulin resistance in hepatocytes: mathematical model	11
Editorial Board	11
Pillars of biology: Boolean modeling of gene-regulatory networks	11
A mathematical model to study the impact of intra-tumour heterogeneity on anti-tumour CD8+ T cell immune response	11
Editorial Board	11
Evaluation of innate and adaptive immune system interactions in the tumor microenvironment via a 3D continuum model	11

Use of 3D chaos game representation to quantify DNA sequence similarity with applications for hierarchical clustering	11
A novel 3D atomistic-continuum cancer invasion model: In silico simulations of an in vitro organotypic invasion assay	11
Estimating survival in continuous space from mark-dead-recovery data — Towards a continuous version of the multinomial dead recovery model	11
Editorial Board	11
Editorial Board	11
Rate-dependent effects of state-specific sodium channel blockers in cardiac tissue: Insights from idealized models	11
Mechanism of carbachol-induced 40 Hz gamma oscillations and the effects of NMDA activation on oscillatory dynamics in a model of the CA3 subfield of the hippocampus	11
Pattern formation in marsh ecosystems modeled through the interaction of marsh vegetation, mussels and sediment	11
The series of a four-node motif and coherent type-1 feed-forward loop can provide sensitive detection over arbitrary range of input signal, thereby explain Weber’s law in higher-order sensory processe	10
Spatial scales in human movement between reservoirs of infection	10
The evolution of germ-soma specialization under different genetic and environmental effects	10
Effects of extracellular potassium on calcium handling and force generation in a model of excitation-contraction coupling in skeletal muscle	10
Vaccination strategies in a pair formation model for human papillomavirus infection: An optimal control approach	10
A letter to the editor about the article “The modularity codes”	10
Artificial selection of communities drives the emergence of structured interactions	10
Genetic networks encode secrets of their past	10
Evolution of labor division in reproduction and multiple group tasks	10
The non-pharmaceutical interventions may affect the advantage in transmission of mutated variants during epidemics: A conceptual model for COVID-19	10
Uncertainty quantification for the random HIV dynamical model driven by drug adherence	10
The nasal cavity of the bearded seal: An effective and robust organ for retaining body heat and water	10
Dynamics and risk sharing in groups of selfish individuals	9
Role of coupling distances in a coupled thalamocortical network in the treatment of epilepsy	9
Dynamics of adrenergic signaling in cardiac myocytes and implications for pharmacological treatment	9
Cell population growth kinetics in the presence of stochastic heterogeneity of cell phenotype	9
Modelling female physiology from head to Toe: Impact of sex hormones, menstrual cycle, and pregnancy	9
On the fitness of informative cues in complex environments	9
The influence of methylation status on a stochastic model of MGMT dynamics in glioblastoma: Phenotypic selection can occur with and without a downshift in promoter methylation status	9
On minimising tumoural growth under treatment resistance	9
Chemotaxis in heterogeneous environments: A multi-agent model of decentralized gathering past obstacles	9
Noise-induced entrainment of the circadian clock by thermoperiods in tomato: A computational approach	9
Life history and deleterious mutation rate coevolution	9
The effect of heterogeneity of relative vaccine costs on the mean population vaccination rate with mpox as an example	9
Computational model of articular cartilage regeneration induced by scaffold implantation in vivo	9
Stochastic simulation of a model for circadian rhythms in plants	9
Optimization of antitumor radiotherapy fractionation via mathematical modeling with account of 4 R’s of radiobiology	9
A phenotype-structured model to reproduce the avascular growth of a tumor and its interaction with the surrounding environment	9
Dynamics of prion proliferation under combined treatment of pharmacological chaperones and interferons	9
Optimal control of pattern formations for an SIR reaction–diffusion epidemic model	9
On the Fourier transform of a quantitative trait: Implications for compressive sensing	9
Modeling the effects of air pollutants and meteorological factors on scarlet fever in five provinces, Northwest China, 2013–2018	9
Approximating steady state distributions for household structured epidemic models	8
Exploring the role of the potential surface in the behaviour of early warning signals	8
Editorial Board	8
HIV transactivation: Stochastic modeling for studying the effects of BET inhibitors on the modulation of P-TEFb levels	8
Doubling time of infectious diseases	8
Modelling how increased Cathepsin B/L and decreased TMPRSS2 usage for cell entry by the SARS-CoV-2 Omicron variant may affect the efficacy and synergy of TMPRSS2 and Cathepsin B/L inhibitors	8
Parameter identifiability and model selection for sigmoid population growth models	8
A simplified longitudinal model for the development of Type 2 Diabetes Mellitus	8
A cell model about symmetric and asymmetric stem cell division	8
Spreading speed of chronic wasting disease across deer groups with overlapping home ranges	8
Hormonal regulation of ovarian follicle growth in humans: Model-based exploration of cycle variability and parameter sensitivities	8
Modeling transit time distributions in microvascular networks	8
How temporal environmental stochasticity affects species richness: Destabilization, neutralization and the storage effect	8
Evaluating the impact of human flow on the spread of infectious diseases	8
Editorial Board	8
Olfactory navigation in the real world: Simple local search strategies for turbulent environments	8
Kinetics, thresholds, and a comparison of mechanisms underlying systemic infection by Listeria monocytogenes	8
Model of drug delivery to populations composed of two cell types	8
Mathematical models of retinitis pigmentosa: The trophic factor hypothesis	8
A stochastic model for topographically influenced cell migration	8
Modelling COVID-19 dynamics and potential for herd immunity by vaccination in Austria, Luxembourg and Sweden	8
The heterogeneous mixing model of COVID-19 with interventions	7
A Tale of two receptors	7
A 3D mathematical model of coupled stem cell-nutrient dynamics in myocardial regeneration therapy	7
Downstream resource leakage a necessary condition for the stress-gradient hypothesis in processing chain commensalisms	7
Temperature variability regulates the interactive effects of warming and pharmaceutical on aquatic ecosystem dynamics	7
Disentangling the growth curve of microbial culture	7
A multiscale continuum model of the vertebrate outer retina: The temporal dynamics of background-induced flicker enhancement	7
Editorial Board	7
Geometrically balanced model of cell growth	7
Modeling phyllotaxis: From the inhibition potential to the real plant	7
A resource-based mechanistic framework for castration-resistant prostate cancer (CRPC)	7
Comment on the article “Spatially-extended nucleation-aggregation-fragmentation models for the dynamics of prion-like neurodegenerative protein-spreading in the brain and its connectome 486 (2020) 110	7
Using registry data to identify individual dairy cows with abnormal patterns in routinely recorded somatic cell counts	7
A new real-time analog circuit of Ca2+ Li-Rinzel astrocyte model based on analytical method	7
Effect of permeability on the initiation of Atherosclerosis modeled as an inflammatory process	7
Application of growth rate from kinetic model to calculate stochastic growth of a bacteria population at low contamination level	7
Editorial Board	7
Modeling long COVID dynamics: Impact of underlying health conditions	7
Multi-timescale analysis of midbrain dopamine neuronal firing activities	7

Passive electrolocation in terrestrial arthropods: Theoretical modelling of location detection	7
An adaptive numerical method for multi-cellular simulations of tissue development and maintenance	7
Age-dependence of food allergy due to decreased supply of naïve T cells	7
Multi-scale model of lumen formation via inverse membrane blebbing mechanism during sprouting angiogenesis process	7
Evolutionary emergence of plant and pollinator polymorphisms in consumer-resource mutualisms	7
Modeling identifies variability in SARS-CoV-2 uptake and eclipse phase by infected cells as principal drivers of extreme variability in nasal viral load in the 48 h post infection	7
Phenomenological-based model of glucose transport from liver to abdominal subcutaneous adipose tissue	7
Editorial Board	7
PD-based ADRC using time-varying gains: An application to microalgal-based bioprocess	7
Evolutionary coexistence in a metacommunity: Competition-colonization trade-off, ownership effects, environmental fluctuations	7
Editorial Board	6
Optimal control of combination immunotherapy for a virtual murine cohort in a glioblastoma-immune dynamics model	6
Evaluation of entropy and fractal dimension as biomarkers for tumor growth and treatment response using cellular automata	6
Propagation of an idealized infection in an airway tree, consequences of the inflammation on the oxygen transfer to blood	6
Editorial Board	6
On the misuse of evolutionary theory to bolster the ‘scientific’ case for intelligent design: A cautionary note	6
Cell orientation under stretch: A review of experimental findings and mathematical modelling	6
A multi-strain model with asymptomatic transmission: Application to COVID-19 in the US	6
Evolution of life cycle dimorphism: An example of sacoglossan sea slugs	6
Data-driven models for the risk of infection and hospitalization during a pandemic: Case study on COVID-19 in Nepal	6
Theoretical investigation of the dependence of population parameters on initial population size	6
Costly punishment sustains indirect reciprocity under low defection detectability	6
Editorial Board	6
A phosphoinositide-based model of actin waves in frustrated phagocytosis	6
Optic flow enrichment via Drosophila head and retina motions to support inflight position regulation	6
Multiple colonies of cancer involved in mutual suppression with the immune system	6
The dynamics of relapses during treatment switch in relapsing-remitting multiple sclerosis	6
Analysis of phenotype-genotype associations using genomic informational field theory (GIFT)	6
Computational model of the cancer necrotic core formation in a tumor-on-a-chip device	6
Cell position-based evaluation of mechanical features of cells in multicellular systems	6
Optimal control applied to Zika virus epidemics in Colombia and Puerto Rico	6
A PID controller for synchronization between master-slave neurons in fractional-order of neocortical network model	6
Estimating the basic reproduction number from noisy daily data	6
Inference on tissue transplantation experiments	6
Flow modeling and structural characterization in fungal pellets	6
Conformity and anti-conformity in a finite population	6
Choice of spatial discretisation influences the progression of viral infection within multicellular tissues	6
Effects of a differentiating therapy on cancer-stem-cell-driven tumors	6
Identifying critical regulatory interactions in cell fate decision and transition by systematic perturbation analysis	6
Corrigendum to “Multiscale numerical workflow describing microalgae motion and light pattern incidence towards population growth in a photobioreactor” [J. Theoret. Biol. 498 (2020) 110293]	6
Insights into the dynamics of ligand-induced dimerisation via mathematical modelling and analysis	6
Stochasticity-induced persistence in coupled social-ecological systems	6
Mathematical modeling of ventilator-induced lung inflammation	6
Editorial Board	6
Predicting pathways for old and new metabolites through clustering	6
Enhanced precision of circadian rhythm by output system	6
The mechanism of pattern transitions between formation and dispersion	6
Pandemic modelling for regions implementing an elimination strategy	6
Hot-topics cross-propagation and opinion-transfer dynamics in the Chinese Sina-microblog social media: A modeling study	6
Representing stimulus information in an energy metabolism pathway	5
Autocatalytic-protection for an unknown locus CRISPR-Cas countermeasure for undesired mutagenic chain reactions	5
A process-based, stage-structured model of potato cyst nematode population dynamics: Effects of temperature and resistance	5
Circulating renin-angiotensin systems mediated feedback controls over the mean-arterial pressure	5
Spatially-dependent model for rods and cones in the retina	5
Square root identities for harvested Beverton–Holt models	5
Probability of Extinction and Peak Time for Multi-Type Epidemics with Application to COVID-19 Variants of Concern	5
Flock2: A model for orientation-based social flocking	5
Hamilton’s rule and kin competition in a finite kin population	5
Pillars of Theoretical Biology: Airway stability and heterogeneity in the constricted lung	5
The importance of ecological dynamics in evolutionary processes: A host-bacteriophage model revisited	5
Modelling count data with partial differential equation models in biology	5
Pillars of theoretical biology: “Biochemical systems analysis, I, II and III”	5
Bridging Wright–Fisher and Moran models	5
Inferring Absolute Cell Numbers from Relative Proportion in Stochastic Models with Cell Plasticity	5
A virtual host model of Mycobacterium tuberculosis infection identifies early immune events as predictive of infection outcomes	5
Numerical modeling of senile plaque development under conditions of limited diffusivity of amyloid-β monomers	5
Editorial Board	5
Causal theory on acceleration of seed germination in the vicinity of high voltage direct current transmission line	5
Evolution of enzyme levels in metabolic pathways: A theoretical approach. Part 2	5
Model-based data analysis of tissue growth in thin 3D printed scaffolds	5
Distributions of 4-subtree patterns for uniform random unrooted phylogenetic trees	5
Super-resolution ultrasound imaging of ischaemia flow: An in silico study	5
Optimal spatial monitoring of populations described by reaction–diffusion models	5
Tradeoffs in the energetic value of neuromodulation in a closed-loop neuromechanical system	5
Inverted repeats in coronavirus SARS-CoV-2 genome manifest the evolution events	5
Joint impacts of media, vaccination and treatment on an epidemic Filippov model with application to COVID-19	5
Editorial Board	5
Virulence management: Closing the feedback loop between healthcare interventions and virulence evolution	5
Uncertainty and error in SARS-CoV-2 epidemiological parameters inferred from population-level epidemic models	5
Boolean function metrics can assist modelers to check and choose logical rules	5
Revisiting the exclusion principle in epidemiology at the limit of a large competitive advantage	5
Beyond predation: Fish–coral interactions can tip the scales of coral disease	5
Corrigendum to “Bacterial resistance to antibodies: A model evolutionary study” [J. Theor. Biol. 417 (2017) 61–67]	5
Co-inoculation with arbuscular mycorrhizal fungi differing in carbon sink strength induces a synergistic effect in plant growth	5
Mechanisms of the end-plate potential noise and its implication for the neuromuscular junction anatomy	5
Editorial Board	5
Biomechanics of transduction by mechanosensory cilia for prey detection in aquatic organisms	5
Editorial Board	5
Where do successful populations originate from?	5
Accounting for dimensional differences in stochastic domain invasion with applications to precancerous cell removal	5