Journal of Theoretical Biology

Article	Citations
Learning to hunt: A data-driven stochastic feedback control model of predator–prey interactions	98
LRBmat: A novel gut microbial interaction and individual heterogeneity inference method for colorectal cancer	47
Evolution of mixed mating: Effects of among-parent variation in early-acting inbreeding depression coupled with overproduction of ovules	43
Topological early warning signals: Quantifying varying routes to extinction in a spatially distributed population model	40
An integrated vertex model of the mesoderm invagination during the embryonic development of Drosophila	39
Editorial Board	34
The effect of oxidative stress on the leading edge of the a-wave in retinitis pigmentosa	30
Editorial Board	30
Lewy body radius growth: The hypothesis of the cube root of time dependency	29
Modeling the influence of cell–cell contact and TGF-β signaling on the epithelial mesenchymal transition in MCF7 breast carcinoma cells	28
A model of tubulin removal and exchange caused by kinesin motor walking on microtubule lattices	27
Cell size homeostasis under the circadian regulation of cell division in cyanobacteria	25
Resource budget model with Duffing oscillator for dynamics of synchronized biennial-bearing olives in the Levant	25
A framework for relating natural movement to length and quality of life in human and non-human animals	24
Stability and reactivity of food webs with trophic interactions	22
Inter-city infections and the role of size heterogeneity in containment strategies	21
Modeling the response of homogeneous and heterogeneous cerebral capillary networks to local changes in vessel diameters	21
Social context modulates scale-free movements in a social insect	20
Identifiability and inference of phylogenetic birth–death models	19
Deciphering circulating tumor cells binding in a microfluidic system thanks to a parameterized mathematical model	19
Separation of evolutionary timescales in coevolving species	18
Evaluating the impact of NPC1 single nucleotide polymorphisms on entry efficiency of filoviruses in vitro: Agent-based model approach	18
Genomic compliance with Chargaff’s second parity rule may have originated non-adaptively, but stem-loops now function adaptively	17
Peripheral straightness leads to shape diversification during formations of entire leaves	17
Editorial Board	17

Exploring COVID-19 transmission patterns and key factors during epidemics caused by three major strains in Asia	17
Editorial Board	17
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
A direct comparison of methods for assessing the threat from emerging infectious diseases in seasonally varying environments	16
On the dynamics of antigen receptors on the B-cell membrane through a two-dimensional stochastic process	16
A process-based life cycle model of the cabbage stem flea beetle on winter oilseed rape: Effects of temperature	16
Network-based uncertainty quantification for mathematical models in epidemiology	16
The relative importance of social information use for population abundance in group-living and non-grouping prey	15
Drug-loaded nanoparticles for cancer therapy: A high-throughput multicellular agent-based modeling study	15
Editorial Board	15
SIRS epidemics with individual heterogeneity of immunity waning	15
Computational modeling implicates protein scaffolding in p38 regulation of Akt	15
Evolution of hunting efficiency of predator and hiding efficiency of prey in a stage-structured prey-predator model	15
Extinctions as a vestige of instability: The geometry of stability and feasibility	15
Humeri under external load: Mechanical implications of differing bone curvature in American otter and honey badger	14
Spatial dynamics of inflammation-causing and commensal bacteria in the gastrointestinal tract	14
Editorial Board	14
Editorial Board	14
Estimating survival in continuous space from mark-dead-recovery data — Towards a continuous version of the multinomial dead recovery model	14
The influence of prey availability on behavioral decisions and reproductive success of a central-place forager during lactation	13
The long term effects of uncoupling interventions as a therapy for dementia in humans	13
Multiple cohort study of hospitalized SARS-CoV-2 in-host infection dynamics: Parameter estimates, identifiability, sensitivity and the eclipse phase profile	13
Spatial sucrose sink profiles shape phloem transport efficiency and xylem-phloem water exchange	13
A model of time-dependent macromolecular and elemental composition of phytoplankton	13
Pattern formation in marsh ecosystems modeled through the interaction of marsh vegetation, mussels and sediment	13
Editorial Board	13
Data-informed model reduction for inference and prediction from non-identifiable models	13
A mathematical model of the within-host kinetics of SARS-CoV-2 neutralizing antibodies following COVID-19 vaccination	13
Bidirectional, unlike unidirectional transport, allows transporting axonal cargos against their concentration gradient	13
Cargo transport properties are enhanced by cylindrical microtubule geometry and elliptical contact zone on cargo surface	13
Evolutionary game dynamics with non-uniform interaction rates in finite population	13
Vaccination strategies in a pair formation model for human papillomavirus infection: An optimal control approach	12
Evaluation of innate and adaptive immune system interactions in the tumor microenvironment via a 3D continuum model	12
Interrelating neuronal morphology by coincidence similarity networks	12
Branching architecture affects genetic diversity within an individual tree	12
Drug mode of action and resource constraints modulate antimicrobial resistance evolution	12
Bounded environmental stochasticity generates secondary Allee thresholds	12
Use of 3D chaos game representation to quantify DNA sequence similarity with applications for hierarchical clustering	11
Evolution of labor division in reproduction and multiple group tasks	11
Genetic networks encode secrets of their past	11
A letter to the editor about the article “The modularity codes”	11
Rate-dependent effects of state-specific sodium channel blockers in cardiac tissue: Insights from idealized models	11
Uncertainty quantification for the random HIV dynamical model driven by drug adherence	11
Editorial Board	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
Artificial selection of communities drives the emergence of structured interactions	11
The effect of heterogeneity of relative vaccine costs on the mean population vaccination rate with mpox as an example	10
Pillars of biology: Boolean modeling of gene-regulatory networks	10
Network reciprocity turns cheap talk into a force for cooperation	10
Modelling female physiology from head to Toe: Impact of sex hormones, menstrual cycle, and pregnancy	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
Computational model of articular cartilage regeneration induced by scaffold implantation in vivo	10
On the Fourier transform of a quantitative trait: Implications for compressive sensing	10
The non-pharmaceutical interventions may affect the advantage in transmission of mutated variants during epidemics: A conceptual model for COVID-19	10
Revisiting a demographic model of pest infestation in farming	9
Editorial Board	9
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	9
Cell population growth kinetics in the presence of stochastic heterogeneity of cell phenotype	9
Bone fracture healing with magnesium: a computational model of immune modulation and regenerative dynamics in union and non-union cases	9
Chemotaxis in heterogeneous environments: A multi-agent model of decentralized gathering past obstacles	9
On minimising tumoural growth under treatment resistance	9
Bridging short- and long-distance dispersal in individual animal movement	9
HIV transactivation: Stochastic modeling for studying the effects of BET inhibitors on the modulation of P-TEFb levels	9
Noise-induced entrainment of the circadian clock by thermoperiods in tomato: A computational approach	9
Modeling the effects of air pollutants and meteorological factors on scarlet fever in five provinces, Northwest China, 2013–2018	9
Dynamics of disease spread in evolving susceptible networks	9
Stochastic eco-evolutionary dynamics of multivariate traits: A framework for modeling population processes illustrated by the study of drifting 9
The nasal cavity of the bearded seal: An effective and robust organ for retaining body heat and water	9
Life history and deleterious mutation rate coevolution	9
Role of coupling distances in a coupled thalamocortical network in the treatment of epilepsy	9
Optimization of antitumor radiotherapy fractionation via mathematical modeling with account of 4 R’s of radiobiology	9
Dynamics and risk sharing in groups of selfish individuals	9
A stochastic model for topographically influenced cell migration	8
Phenomenological modeling of gene transcription by approximating cooperativity of transcription factors improves prediction and reduces complexity in gene regulatory network models	8
Exploring the role of the potential surface in the behaviour of early warning signals	8
Crick’s “Frozen accident theory” of the genetic code explored by Ising models	8
A cell model about symmetric and asymmetric stem cell division	8
Kinetics, thresholds, and a comparison of mechanisms underlying systemic infection by Listeria monocytogenes	8
Modeling transit time distributions in microvascular networks	8
Spreading speed of chronic wasting disease across deer groups with overlapping home ranges	8
Mathematical modeling of tumor-immune interactions in breast cancer must model tumor-immune interactions in breast cancer	8
Rankings of tuberculosis antibiotic treatment regimens are sensitive to spatial scale, detection limit, and initial host bacterial burden	8
A simplified longitudinal model for the development of Type 2 Diabetes Mellitus	8
Ancestral process for infectious disease outbreaks with superspreading	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
Evaluating the impact of human flow on the spread of infectious diseases	8
Short-term Bayesian influenza forecasting in a hospital environment using a linear Kalman filter	8
Characterisation of conserved and reacting moieties in chemical reaction networks	8
On the onset of multicellular invasive behavior in hierarchical lineage: The role of inhibitory feedback and local fluctuations	8
Hormonal regulation of ovarian follicle growth in humans: Model-based exploration of cycle variability and parameter sensitivities	8
Editorial Board	8
An adaptive numerical method for multi-cellular simulations of tissue development and maintenance	7
Multi-scale model of lumen formation via inverse membrane blebbing mechanism during sprouting angiogenesis process	7
Passive electrolocation in terrestrial arthropods: Theoretical modelling of location detection	7
An extensive study of two-node McCulloch-pitts networks	7
Using registry data to identify individual dairy cows with abnormal patterns in routinely recorded somatic cell counts	7
Doubling time of infectious diseases	7
Direct reciprocity in multi-action repeated games	7
Multi-timescale analysis of midbrain dopamine neuronal firing activities	7
Effect of permeability on the initiation of Atherosclerosis modeled as an inflammatory process	7
Evolutionary emergence of plant and pollinator polymorphisms in consumer-resource mutualisms	7
Age-dependence of food allergy due to decreased supply of naïve T cells	7
Adaptive dynamic resource allocation can cause tragedy of the commons in plants with nutrient competition	7
Mathematical modeling of the feather follicle morphogenetic wave in birds	7
A resource-based mechanistic framework for castration-resistant prostate cancer (CRPC)	7
Modelling the spread and management of Varroa destructor in naive european honeybee populations	7
The heterogeneous mixing model of COVID-19 with interventions	7
A new real-time analog circuit of Ca2+ Li-Rinzel astrocyte model based on analytical method	7
Editorial Board	6
Editorial Board	6
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	6
Human papillomavirus driving cervical cancer: A mathematical model with persistent infection, cancer progression, and spontaneous remission	6
Optimal control of combination immunotherapy for a virtual murine cohort in a glioblastoma-immune dynamics model	6
Data-driven models for the risk of infection and hospitalization during a pandemic: Case study on COVID-19 in Nepal	6
Choice of spatial discretisation influences the progression of viral infection within multicellular tissues	6
Evaluation of entropy and fractal dimension as biomarkers for tumor growth and treatment response using cellular automata	6
Editorial Board	6
Disentangling the growth curve of microbial culture	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
Stochasticity-induced persistence in coupled social-ecological systems	6
A PID controller for synchronization between master-slave neurons in fractional-order of neocortical network model	6
The mechanism of pattern transitions between formation and dispersion	6
Theoretical investigation of the dependence of population parameters on initial population size	6
The dynamics of relapses during treatment switch in relapsing-remitting multiple sclerosis	6
Social mixing and time use throughout the year: Potential changes in disease transmission and age distribution of cases	6
Effects of a differentiating therapy on cancer-stem-cell-driven tumors	6
Geometrically balanced model of cell growth	6
Propagation of an idealized infection in an airway tree, consequences of the inflammation on the oxygen transfer to blood	6
On the misuse of evolutionary theory to bolster the ‘scientific’ case for intelligent design: A cautionary note	6
Behavioral flexibility reshapes prosocial punishment under spatial reciprocity	6

Multiple colonies of cancer involved in mutual suppression with the immune system	6
Cell orientation under stretch: A review of experimental findings and mathematical modelling	6
Cell position-based evaluation of mechanical features of cells in multicellular systems	6
Editorial Board	6
Estimating the basic reproduction number from noisy daily data	6
Modeling long COVID dynamics: Impact of underlying health conditions	6
Optimal control applied to Zika virus epidemics in Colombia and Puerto Rico	6
Identifying critical regulatory interactions in cell fate decision and transition by systematic perturbation analysis	6
Optic flow enrichment via Drosophila head and retina motions to support inflight position regulation	6
PD-based ADRC using time-varying gains: An application to microalgal-based bioprocess	6
Computational model of the cancer necrotic core formation in a tumor-on-a-chip device	6
The role of antibody-mediated immunity in shaping the seasonality of respiratory viruses	6
Modeling phyllotaxis: From the inhibition potential to the real plant	6
Temperature variability regulates the interactive effects of warming and pharmaceutical on aquatic ecosystem dynamics	6
Editorial Board	6
Analysis of phenotype-genotype associations using genomic informational field theory (GIFT)	6
A multi-strain model with asymptomatic transmission: Application to COVID-19 in the US	6
Editorial Board	6
Biomechanics of transduction by mechanosensory cilia for prey detection in aquatic organisms	5
Effects of insecticides and awareness on the dynamics of a delayed malaria model: A real-data calibration	5
Mathematical model suggests current CAR-macrophage dosage is efficient to low pre-infusion tumour burden but refractory to high tumour burden	5
Tradeoffs in the energetic value of neuromodulation in a closed-loop neuromechanical system	5
Corrigendum to “An optimal network that promotes the spread of an advantageous variant in an SIR epidemic”. [J. Theor. Biol. 605 (2025) 112095]	5
Circulating renin-angiotensin systems mediated feedback controls over the mean-arterial pressure	5
Editorial Board	5
Modelling count data with partial differential equation models in biology	5
Pandemic modelling for regions implementing an elimination strategy	5
Distributions of 4-subtree patterns for uniform random unrooted phylogenetic trees	5
Conformity and anti-conformity in a finite population	5
Costly punishment sustains indirect reciprocity under low defection detectability	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
Inferring absolute cell numbers from relative proportion in stochastic models with cell plasticity	5
Revisiting the exclusion principle in epidemiology at the limit of a large competitive advantage	5
Super-resolution ultrasound imaging of ischaemia flow: An in silico study	5
Editorial Board	5
Establishment of risk classification index for animal brucellosis by stochastic models	5
“Normal” phylogenetic networks may be emerging as the leading class	5
Pillars of theoretical biology: “Biochemical systems analysis, I, II and III”	5
Flock2: A model for orientation-based social flocking	5
Editorial Board	5
Editorial Board	5
Enhanced precision of circadian rhythm by output system	5
Emergent stable tissue shapes from the regulatory feedback between morphogens and cell growth	5
Predicting pathways for old and new metabolites through clustering	5
A note on metapopulation models	5
Accounting for dimensional differences in stochastic domain invasion with applications to precancerous cell removal	5
Mutant emergence timing and population immunisation status impact epidemiological dynamics	5
Synchronization transition in networks of Fractional-Order memristive Hindmarsh-Rose neurons	5
Editorial Board	5
Pillars of Theoretical Biology: Airway stability and heterogeneity in the constricted lung	5
Representing stimulus information in an energy metabolism pathway	5
Comparing the biomechanics of triangular and cylindrical plant stems: When are triangular hollow structures mechanically superior to cylindrical ones?	5
Mechanisms of the end-plate potential noise and its implication for the neuromuscular junction anatomy	5
Editorial Board	5
Timing the initiation of sex: Delay mechanisms alter fitness outcomes in a rotifer population model	5
Local and systemic factors in the resolution of inflammation	5
Uncertainty and error in SARS-CoV-2 epidemiological parameters inferred from population-level epidemic models	5
Numerical modeling of senile plaque development under conditions of limited diffusivity of amyloid-β monomers	5