Journal of Theoretical Biology

Article	Citations
Resource budget model with Duffing oscillator for dynamics of synchronized biennial-bearing olives in the Levant	83
The eco-evolutionary modelling of populations and their traits using a measure of trait differentiation	71
The effect of oxidative stress on the leading edge of the a-wave in retinitis pigmentosa	61
Learning to hunt: A data-driven stochastic feedback control model of predator–prey interactions	48
Social context modulates scale-free movements in a social insect	46
LRBmat: A novel gut microbial interaction and individual heterogeneity inference method for colorectal cancer	45
Using geometry to rank evenness measures: Towards a deeper understanding of divergence	43
Second compartment widens plasmid invasion conditions: Two-compartment pair-formation model of conjugation in the gut	36
Evolution of mixed mating: Effects of among-parent variation in early-acting inbreeding depression coupled with overproduction of ovules	33
Topological early warning signals: Quantifying varying routes to extinction in a spatially distributed population model	32
An integrated vertex model of the mesoderm invagination during the embryonic development of Drosophila	31
Editorial Board	30
Cell size homeostasis under the circadian regulation of cell division in cyanobacteria	29
A framework for relating natural movement to length and quality of life in human and non-human animals	28
Modeling the response of homogeneous and heterogeneous cerebral capillary networks to local changes in vessel diameters	26
Modeling the influence of cell–cell contact and TGF-β signaling on the epithelial mesenchymal transition in MCF7 breast carcinoma cells	26
Editorial Board	24
Deciphering circulating tumor cells binding in a microfluidic system thanks to a parameterized mathematical model	24
Stability and reactivity of food webs with trophic interactions	24
A model of tubulin removal and exchange caused by kinesin motor walking on microtubule lattices	23
Lewy body radius growth: The hypothesis of the cube root of time dependency	23
A mathematical model to evaluate the role of memory B and T cells in heterologous secondary dengue infection	23
Identifiability and inference of phylogenetic birth–death models	21
Internal phosphorus recycling promotes rich and complex dynamics in an algae-phosphorus model: Implications for eutrophication management	20
Extinctions as a vestige of instability: The geometry of stability and feasibility	19

Network-based uncertainty quantification for mathematical models in epidemiology	19
The relative importance of social information use for population abundance in group-living and non-grouping prey	18
Editorial Board	18
Editorial Board	18
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	17
A process-based life cycle model of the cabbage stem flea beetle on winter oilseed rape: Effects of temperature	17
Peripheral straightness leads to shape diversification during formations of entire leaves	17
Exploring COVID-19 transmission patterns and key factors during epidemics caused by three major strains in Asia	17
A direct comparison of methods for assessing the threat from emerging infectious diseases in seasonally varying environments	17
Inference on the structure of gene regulatory networks	16
Evolution of hunting efficiency of predator and hiding efficiency of prey in a stage-structured prey-predator model	16
An approximate solution of the SLIP model under the regime of linear angular dynamics during stance and the stability of symmetric periodic running gaits	16
SIRS epidemics with individual heterogeneity of immunity waning	16
Computational modeling implicates protein scaffolding in p38 regulation of Akt	15
The long term effects of uncoupling interventions as a therapy for dementia in humans	15
Estimating survival in continuous space from mark-dead-recovery data — Towards a continuous version of the multinomial dead recovery model	15
Branching architecture affects genetic diversity within an individual tree	15
Spatial dynamics of inflammation-causing and commensal bacteria in the gastrointestinal tract	15
Cargo transport properties are enhanced by cylindrical microtubule geometry and elliptical contact zone on cargo surface	15
The influence of prey availability on behavioral decisions and reproductive success of a central-place forager during lactation	15
Pattern formation in marsh ecosystems modeled through the interaction of marsh vegetation, mussels and sediment	14
Humeri under external load: Mechanical implications of differing bone curvature in American otter and honey badger	14
Editorial Board	14
Coevolution of the reckless prey and the patient predator	14
Editorial Board	14
Multiple cohort study of hospitalized SARS-CoV-2 in-host infection dynamics: Parameter estimates, identifiability, sensitivity and the eclipse phase profile	14
Editorial Board	14
Editorial Board	13
Evolutionary game dynamics with non-uniform interaction rates in finite population	13
A novel cost framework reveals evidence for competitive selection in the evolution of complex traits during plant domestication	13
Editorial Board	13
Bidirectional, unlike unidirectional transport, allows transporting axonal cargos against their concentration gradient	13
Evaluation of innate and adaptive immune system interactions in the tumor microenvironment via a 3D continuum model	13
Bounded environmental stochasticity generates secondary Allee thresholds	12
A mathematical model of the within-host kinetics of SARS-CoV-2 neutralizing antibodies following COVID-19 vaccination	12
Interrelating neuronal morphology by coincidence similarity networks	12
A model of time-dependent macromolecular and elemental composition of phytoplankton	12
The nasal cavity of the bearded seal: An effective and robust organ for retaining body heat and water	12
Data-informed model reduction for inference and prediction from non-identifiable models	12
Editorial Board	12
Use of 3D chaos game representation to quantify DNA sequence similarity with applications for hierarchical clustering	11
Large connected components in sexual networks and their role in HIV transmission in Sub-Saharan Africa: A model-based analysis of HPTN 071(PopART) data	11
Life history and deleterious mutation rate coevolution	11
The evolution of germ-soma specialization under different genetic and environmental effects	11
Pillars of biology: Boolean modeling of gene-regulatory networks	11
Bridging short- and long-distance dispersal in individual animal movement	11
Rate-dependent effects of state-specific sodium channel blockers in cardiac tissue: Insights from idealized models	11
On the Fourier transform of a quantitative trait: Implications for compressive sensing	11
The effect of heterogeneity of relative vaccine costs on the mean population vaccination rate with mpox as an example	11

A mathematical model to study the impact of intra-tumour heterogeneity on anti-tumour CD8+ T cell immune response	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
The non-pharmaceutical interventions may affect the advantage in transmission of mutated variants during epidemics: A conceptual model for COVID-19	11
A letter to the editor about the article “The modularity codes”	11
Modeling the effects of air pollutants and meteorological factors on scarlet fever in five provinces, Northwest China, 2013–2018	10
Genetic networks encode secrets of their past	10
Artificial selection of communities drives the emergence of structured interactions	10
Optimal control of pattern formations for an SIR reaction–diffusion epidemic model	10
Vaccination strategies in a pair formation model for human papillomavirus infection: An optimal control approach	10
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
Evolution of labor division in reproduction and multiple group tasks	10
Uncertainty quantification for the random HIV dynamical model driven by drug adherence	10
Dynamics and risk sharing in groups of selfish individuals	10
Modelling female physiology from head to Toe: Impact of sex hormones, menstrual cycle, and pregnancy	10
Computational model of articular cartilage regeneration induced by scaffold implantation in vivo	10
Optimization of antitumor radiotherapy fractionation via mathematical modeling with account of 4 R’s of radiobiology	9
On minimising tumoural growth under treatment resistance	9
Role of coupling distances in a coupled thalamocortical network in the treatment of epilepsy	9
Mathematical models of retinitis pigmentosa: The trophic factor hypothesis	9
Doubling time of infectious diseases	9
Editorial Board	9
Noise-induced entrainment of the circadian clock by thermoperiods in tomato: A computational approach	9
Cell population growth kinetics in the presence of stochastic heterogeneity of cell phenotype	9
HIV transactivation: Stochastic modeling for studying the effects of BET inhibitors on the modulation of P-TEFb levels	9
A stochastic model for topographically influenced cell migration	9
Model of drug delivery to populations composed of two cell types	9
A cell model about symmetric and asymmetric stem cell division	9
Revisiting a demographic model of pest infestation in farming	9
Chemotaxis in heterogeneous environments: A multi-agent model of decentralized gathering past obstacles	9
Kinetics, thresholds, and a comparison of mechanisms underlying systemic infection by Listeria monocytogenes	9
Hormonal regulation of ovarian follicle growth in humans: Model-based exploration of cycle variability and parameter sensitivities	9
Evaluating the impact of human flow on the spread of infectious diseases	9
Modeling transit time distributions in microvascular networks	9
Mathematical modeling of the feather follicle morphogenetic wave in birds	8
A simplified longitudinal model for the development of Type 2 Diabetes Mellitus	8
A phenotype-structured model to reproduce the avascular growth of a tumor and its interaction with the surrounding environment	8
Crick’s “Frozen accident theory” of the genetic code explored by Ising models	8
On the onset of multicellular invasive behavior in hierarchical lineage: The role of inhibitory feedback and local fluctuations	8
Temperature variability regulates the interactive effects of warming and pharmaceutical on aquatic ecosystem dynamics	8
Rankings of tuberculosis antibiotic treatment regimens are sensitive to spatial scale, detection limit, and initial host bacterial burden	8
Ancestral process for infectious disease outbreaks with superspreading	8
Approximating steady state distributions for household structured epidemic models	8
Modelling COVID-19 dynamics and potential for herd immunity by vaccination in Austria, Luxembourg and Sweden	8
Parameter identifiability and model selection for sigmoid population growth models	8
Spreading speed of chronic wasting disease across deer groups with overlapping home ranges	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
Exploring the role of the potential surface in the behaviour of early warning signals	8
How temporal environmental stochasticity affects species richness: Destabilization, neutralization and the storage effect	8
A 3D mathematical model of coupled stem cell-nutrient dynamics in myocardial regeneration therapy	7
Evolutionary coexistence in a metacommunity: Competition-colonization trade-off, ownership effects, environmental fluctuations	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
Disentangling the growth curve of microbial culture	7
On the misuse of evolutionary theory to bolster the ‘scientific’ case for intelligent design: A cautionary note	7
Identifying critical regulatory interactions in cell fate decision and transition by systematic perturbation analysis	7
Multi-scale model of lumen formation via inverse membrane blebbing mechanism during sprouting angiogenesis process	7
A new real-time analog circuit of Ca2+ Li-Rinzel astrocyte model based on analytical method	7
An adaptive numerical method for multi-cellular simulations of tissue development and maintenance	7
Multi-timescale analysis of midbrain dopamine neuronal firing activities	7
The heterogeneous mixing model of COVID-19 with interventions	7
Passive electrolocation in terrestrial arthropods: Theoretical modelling of location detection	7
Phenomenological-based model of glucose transport from liver to abdominal subcutaneous adipose tissue	7
Computational model of the cancer necrotic core formation in a tumor-on-a-chip device	7
Editorial Board	7
Age-dependence of food allergy due to decreased supply of naïve T cells	7
Downstream resource leakage a necessary condition for the stress-gradient hypothesis in processing chain commensalisms	7
Using registry data to identify individual dairy cows with abnormal patterns in routinely recorded somatic cell counts	7
A resource-based mechanistic framework for castration-resistant prostate cancer (CRPC)	7
Effect of permeability on the initiation of Atherosclerosis modeled as an inflammatory process	7
Optimal control of combination immunotherapy for a virtual murine cohort in a glioblastoma-immune dynamics model	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
PD-based ADRC using time-varying gains: An application to microalgal-based bioprocess	7
Evolutionary emergence of plant and pollinator polymorphisms in consumer-resource mutualisms	7
Effects of a differentiating therapy on cancer-stem-cell-driven tumors	6
Editorial Board	6
Propagation of an idealized infection in an airway tree, consequences of the inflammation on the oxygen transfer to blood	6
Choice of spatial discretisation influences the progression of viral infection within multicellular tissues	6
Analysis of phenotype-genotype associations using genomic informational field theory (GIFT)	6
Editorial Board	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
Multiple colonies of cancer involved in mutual suppression with the immune system	6

Geometrically balanced model of cell growth	6
Stochasticity-induced persistence in coupled social-ecological systems	6
Editorial Board	6
Insights into the dynamics of ligand-induced dimerisation via mathematical modelling and analysis	6
Evaluation of entropy and fractal dimension as biomarkers for tumor growth and treatment response using cellular automata	5
Optimal control applied to Zika virus epidemics in Colombia and Puerto Rico	5
Editorial Board	5
Predicting pathways for old and new metabolites through clustering	5
Estimating the basic reproduction number from noisy daily data	5
Conformity and anti-conformity in a finite population	5
Cell orientation under stretch: A review of experimental findings and mathematical modelling	5
Virulence management: Closing the feedback loop between healthcare interventions and virulence evolution	5
Theoretical investigation of the dependence of population parameters on initial population size	5
The mechanism of pattern transitions between formation and dispersion	5
A PID controller for synchronization between master-slave neurons in fractional-order of neocortical network model	5
Hot-topics cross-propagation and opinion-transfer dynamics in the Chinese Sina-microblog social media: A modeling study	5
Flow modeling and structural characterization in fungal pellets	5
Editorial Board	5
Enhanced precision of circadian rhythm by output system	5
The dynamics of relapses during treatment switch in relapsing-remitting multiple sclerosis	5
Modeling phyllotaxis: From the inhibition potential to the real plant	5
Modeling long COVID dynamics: Impact of underlying health conditions	5
Data-driven models for the risk of infection and hospitalization during a pandemic: Case study on COVID-19 in Nepal	5
Cell position-based evaluation of mechanical features of cells in multicellular systems	5
Optic flow enrichment via Drosophila head and retina motions to support inflight position regulation	5
Editorial Board	5
Editorial Board	5
Uncertainty and error in SARS-CoV-2 epidemiological parameters inferred from population-level epidemic models	5
Co-inoculation with arbuscular mycorrhizal fungi differing in carbon sink strength induces a synergistic effect in plant growth	4
Modelling count data with partial differential equation models in biology	4
Optimal spatial monitoring of populations described by reaction–diffusion models	4
Representing stimulus information in an energy metabolism pathway	4
Tradeoffs in the energetic value of neuromodulation in a closed-loop neuromechanical system	4
Accounting for dimensional differences in stochastic domain invasion with applications to precancerous cell removal	4
A note on metapopulation models	4
Distributions of 4-subtree patterns for uniform random unrooted phylogenetic trees	4
Costly punishment sustains indirect reciprocity under low defection detectability	4
A multi-strain model with asymptomatic transmission: Application to COVID-19 in the US	4
Mutant emergence timing and population immunisation status impact epidemiological dynamics	4
Biomechanics of transduction by mechanosensory cilia for prey detection in aquatic organisms	4
Corrigendum to “An optimal network that promotes the spread of an advantageous variant in an SIR epidemic”. [J. Theor. Biol. 605 (2025) 112095]	4
Bridging Wright–Fisher and Moran models	4
Hamilton’s rule and kin competition in a finite kin population	4
Mechanisms of the end-plate potential noise and its implication for the neuromuscular junction anatomy	4
Autocatalytic-protection for an unknown locus CRISPR-Cas countermeasure for undesired mutagenic chain reactions	4
Boolean function metrics can assist modelers to check and choose logical rules	4
A virtual host model of Mycobacterium tuberculosis infection identifies early immune events as predictive of infection outcomes	4
Editorial Board	4
Pillars of theoretical biology: “Biochemical systems analysis, I, II and III”	4
Editorial Board	4
Inverted repeats in coronavirus SARS-CoV-2 genome manifest the evolution events	4
Optimal targeted therapy for multiple cancers based on contrastive Notch signaling networks	4
Establishment of risk classification index for animal brucellosis by stochastic models	4
Editorial Board	4
Flock2: A model for orientation-based social flocking	4
“Normal” phylogenetic networks may be emerging as the leading class	4
Numerical modeling of senile plaque development under conditions of limited diffusivity of amyloid-β monomers	4
Circulating renin-angiotensin systems mediated feedback controls over the mean-arterial pressure	4
Inferring absolute cell numbers from relative proportion in stochastic models with cell plasticity	4
Editorial Board	4
Revisiting the exclusion principle in epidemiology at the limit of a large competitive advantage	4
Pandemic modelling for regions implementing an elimination strategy	4
The importance of ecological dynamics in evolutionary processes: A host-bacteriophage model revisited	4
Editorial Board	4
Synchronization transition in networks of Fractional-Order memristive Hindmarsh-Rose neurons	4