Journal of Theoretical Biology

Article	Citations
Theoretical evidence of osteoblast self-inhibition after activation of the genetic regulatory network controlling mineralization	107
Pulsatile signaling of bistable switches reveal the distinct nature of pulse processing by mutual activation and mutual inhibition loop	60
Multi-timescale analysis of midbrain dopamine neuronal firing activities	59
Investigating the synergistic effects of immunotherapy and normalization treatment in modulating tumor microenvironment and enhancing treatment efficacy	49
Optimal dormancy strategies in fluctuating environments given delays in phenotypic switching	40
The impact of codon choice on translation process in Saccharomyces cerevisiae: folding class, protein function and secondary structure	39
Data-driven mathematical modeling of sleep consolidation in early childhood	38
Evolutionary emergence of plant and pollinator polymorphisms in consumer-resource mutualisms	36
Trade-off between climatic and human population impacts on Aedes aegypti life history shapes its geographic distribution	34
A coupled neural field model for the standard consolidation theory	33
Evolutionary coexistence in a metacommunity: Competition-colonization trade-off, ownership effects, environmental fluctuations	33
Predator avoidance and foraging for food shape synchrony and response to perturbations in trophic metacommunities	33
Evolution of mixed mating: Effects of among-parent variation in early-acting inbreeding depression coupled with overproduction of ovules	30
Editorial Board	30
Epidemic dynamics on metapopulation networks with node2vec mobility	30
A mathematical model to evaluate the role of memory B and T cells in heterologous secondary dengue infection	29
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	27
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Shrinkage in serial intervals across transmission generations of COVID-19	24
A mathematical model for nutrient-limited uniaxial growth of a compressible tissue	23
Human movement avoidance decisions during Coronavirus disease 2019 in Japan	23
Using geometry to rank evenness measures: Towards a deeper understanding of divergence	21
The eco-evolutionary modelling of populations and their traits using a measure of trait differentiation	21
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Discrete-state models identify pathway specific B cell states across diseases and infections at single-cell resolution	18
Mathematical modeling of calcium homeostasis in female rats: An analysis of sex differences and maternal adaptations	18
Evolution of spite in an n-player game with an opting-out option	18
A coupled model for the dynamics of gas exchanges in the human lung with Haldane and Bohr’s effects	17
A foraging ocean sunfish and the ‘nearest neighbor’ problem	17
Editorial Board	16
Quasi-species evolution maximizes genotypic reproductive value (not fitness or flatness)	16
Understanding noise in cell signalling in the prospect of drug-targets	16
Multi-scale model of lumen formation via inverse membrane blebbing mechanism during sprouting angiogenesis process	16
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Tumour growth control: analysis of alternative approaches	15
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Effect of permeability on the initiation of Atherosclerosis modeled as an inflammatory process	14
The importance of vaccinated individuals to population-level evolution of pathogens	14
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LRBmat: A novel gut microbial interaction and individual heterogeneity inference method for colorectal cancer	13
Prevalence estimation and optimal classification methods to account for time dependence in antibody levels	13
Evolution of pathogens with cross-immunity in response to healthcare interventions	13
Modeling the response of homogeneous and heterogeneous cerebral capillary networks to local changes in vessel diameters	13
Optimal foraging strategies for mutually avoiding competitors	13
A spatially distributed model of brain metabolism highlights the role of diffusion in brain energy metabolism	13
Spatial metapopulation dynamics with local and global colonization	13
Modeling the influence of cell–cell contact and TGF-β signaling on the epithelial mesenchymal transition in MCF7 breast carcinoma cells	12
Cell size homeostasis under the circadian regulation of cell division in cyanobacteria	12
Social context modulates scale-free movements in a social insect	12
Topological early warning signals: Quantifying varying routes to extinction in a spatially distributed population model	12
Evolution of enzyme levels in metabolic pathways: A theoretical approach. Part 1	12
The effect of the opting-out strategy on conditions for selection to favor the evolution of cooperation in a finite population	12
Editorial Board	12
Modeling microtubule dynamic instability: Microtubule growth, shortening and pause	12
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Cortical depth-dependent modeling of visual hemodynamic responses	11
On-off intermittency and irruptions in host-parasitoid dynamics	11
A new real-time analog circuit of Ca2+ Li-Rinzel astrocyte model based on analytical method	11
The sensitivity of complex dynamic food webs to the loss of top omnivores	11
Editorial Board	11
The origin of the genetic code and origin of ideas	11
A mechanistic model captures livestock trading, disease dynamics, and compensatory behaviour in response to control measures	11
Downstream resource leakage a necessary condition for the stress-gradient hypothesis in processing chain commensalisms	11
Modeling anthrax-rabies interactions in zebra-jackal cycles	10
Global analysis of a cancer model with drug resistance due to Lamarckian induction and microvesicle transfer	10
Application of growth rate from kinetic model to calculate stochastic growth of a bacteria population at low contamination level	10
Parasite evolution in an age-structured population	10
Application of a novel mathematical model to identify intermediate hosts of SARS-CoV-2	10
Modelling uniaxial non-uniform yeast colony growth: Comparing an agent-based model and continuum approximations	10
Exponential dynamics of DNA methylation with age	10
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In Remembrance: Professor Lewis Wolpert	10

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A 3D mathematical model of coupled stem cell-nutrient dynamics in myocardial regeneration therapy	9
Network models to evaluate vaccine strategies towards herd immunity in COVID-19	9
Nonlinear thermodynamics of biological signal transduction for predicting conservation of entropy production rate	9
Identifiability and inference of phylogenetic birth–death models	9
First passage time properties of miRNA-mediated protein translation	9
Evolution of cooperation in social dilemmas with assortment in finite populations	9
Optimal vaccination strategies for imperfect vaccines and variable host susceptibility	9
Quantifying robustness of the gap gene network	9
A mathematical model of competition between fiber and mucin degraders in the gut provides a possible explanation for mucus thinning	9
Differential impacts of contact tracing and lockdowns on outbreak size in COVID-19 model applied to China	9
A Josephson junction-coupled neuron with double capacitive membranes	9
Passive electrolocation in terrestrial arthropods: Theoretical modelling of location detection	9
A multi-strain epidemic model for COVID-19 with infected and asymptomatic cases: Application to French data	9
The role of alcohol consumption on acetaminophen induced liver injury: Implications from a mathematical model	9
An integrated vertex model of the mesoderm invagination during the embryonic development of Drosophila	9
The heterogeneous mixing model of COVID-19 with interventions	9
Peripheral structures in unlabelled trees and the accumulation of subgenomes in the evolution of polyploids	9
A broader context for understanding amino acid alphabet optimality	8
Assessing the impact of insecticide-treated nets in the face of insecticide resistance on malaria control	8
How optimal allocation of limited testing capacity changes epidemic dynamics	8
A Tale of two receptors	8
Second compartment widens plasmid invasion conditions: Two-compartment pair-formation model of conjugation in the gut	8
A novel COVID-19 epidemiological model with explicit susceptible and asymptomatic isolation compartments reveals unexpected consequences of timing social distancing	8
Molecular mechanism of interaction between kinesin motors affecting their residence times on microtubule lattice and end	8
Mathematical modelling of the hematopoietic stem cell-niche system: Clonal dominance based on stem cell fitness.	8
Two linked loci under mutation-selection balance and Muller’s ratchet	8
Sterile males and females can synergistically suppress wild pests targeted by sterile insect technique	8
Replicator dynamics for the game theoretic selection models based on state	8
Vaccine hesitancy promotes emergence of new SARS-CoV-2 variants	8
Sharp boundary formation and invasion between spatially adjacent periodical cicada broods	8
Patterns of reported infection and reinfection of SARS-CoV-2 in England	8
Individual specialization and generalization in predator-prey dynamics: The determinant role of predation efficiency and prey reproductive rates	8
Investigation of phase synchronization in functional brain networks of children with ADHD using nonlinear recurrence measure	8
Coexistence of Hopf-born rotation and heteroclinic cycling in a time-delayed three-gene auto-regulated and mutually-repressed core genetic regulation network	8
Diffusion approximations in population genetics and the rate of Muller’s ratchet	8
The circulation stage of the metastatic cascade: A mathematical description and its clinical implications	8
Nonlinear multi-objective flux balance analysis of the Warburg Effect	8
The voltage-depolarization performance vs the free energy cost of a single nACh receptor	8
Matrix adhesion and remodeling diversifies modes of cancer invasion across spatial scales	7
How best can finite-time social distancing reduce epidemic final size?	7
Agelessness is possible under the disposable soma theory but system complexity makes it unlikely	7
Modelling strategies to organize healthcare workforce during pandemics: Application to COVID-19	7
An investigation of the effect of brain atrophy on brain injury in multiple sclerosis	7
Critical observation of WHO recommended multidrug therapy on the disease leprosy through mathematical study	7
T cell therapy against cancer: A predictive diffuse-interface mathematical model informed by pre-clinical studies	7
The eco-evolutionary dynamics of two strategic species: From the predator-prey to the innocent-spreader rumor model	7
Linking the disease transmission to information dissemination dynamics: An insight from a multi-scale model study	7
Weak selection and stochastic evolutionary stability in a stochastic replicator dynamics	7
Lewy body radius growth: The hypothesis of the cube root of time dependency	7
Optimal strategies for social distancing and testing to control COVID-19	7
An adaptive numerical method for multi-cellular simulations of tissue development and maintenance	7
Optimal resource allocation in micro-organisms under periodic nutrient fluctuations	7
The evolutionary dynamics of hyperparasites	7
Epidemic dynamics with time-varying transmission risk reveal the role of disease stage-dependent infectiousness	7
Disentangling the growth curve of microbial culture	7
Patient-specific parameter estimation: Coupling a heart model and experimental data	7
Resource budget model with Duffing oscillator for dynamics of synchronized biennial-bearing olives in the Levant	7
A framework for relating natural movement to length and quality of life in human and non-human animals	7
Cell-center-based model for simulating three-dimensional monolayer tissue deformation	7
Population dynamics and games of variable size	7
Temperature variability regulates the interactive effects of warming and pharmaceutical on aquatic ecosystem dynamics	7
Sensitivity assessment of optimal control strategies and cost-effectiveness analysis of a novel Candida Auris environmental transmission model in intensive care facilities	7
Multisolitons-like patterns in a one-dimensional MARCKS protein cyclic model	7
The impact of contact-network structure on important epidemiological quantities of infectious disease transmission and the identification of the extremes	7
Using registry data to identify individual dairy cows with abnormal patterns in routinely recorded somatic cell counts	7
Evolutionary dynamics of zero-determinant strategies in repeated multiplayer games	7
Workplace absenteeism due to COVID-19 and influenza across Canada: A mathematical model	6
A kin-selection model of fairness in heterogeneous populations	6
Comparative analysis of kinetic realizations of insulin signaling	6
A time series representation of protein sequences for similarity comparison	6
Cooperative success in epithelial public goods games	6
Subsistence of sib altruism in different mating systems and Haldane’s arithmetic	6
Corrigendum to “Stationary moments, diffusion limits, and extinction times for logistic growth with random catastrophes” [J. Theor. Biol. 454 (2018) 154–163]	6
An RNA-based theory of natural universal computation	6
Phenotype-structured model of intra-clonal heterogeneity and drug resistance in multiple myeloma	6
A resource-based mechanistic framework for castration-resistant prostate cancer (CRPC)	6
A dynamical model for the origin of anisogamy	6
Intelligent phenotype-detection and gene expression profile generation with generative adversarial networks	6
Perceived risk induced multiscale model: Coupled within-host and between-host dynamics and behavioral dynamics	6

Learning to hunt: A data-driven stochastic feedback control model of predator–prey interactions	6
Corrigendum to “From the Price equation to the selection gradient in class-structured populations: A quasi-equilibrium route” [J. Theor. Biol. 447 (2018) 178–189]	6
A direct comparison of methods for assessing the threat from emerging infectious diseases in seasonally varying environments	6
How do biases in sex ratio and disease characteristics affect the spread of sexually transmitted infections?	6
Optimisation of gene expression noise for cellular persistence against lethal events	6
Poacher-population dynamics when legal trade of naturally deceased organisms funds anti-poaching enforcement	6
Indirect reciprocity with abductive reasoning	6
Social relationship adjustments within the same sex promote marital bliss	6
On the limits to invasion prediction using coexistence outcomes	6
From Bayes to Darwin: Evolutionary search as an exaptation from sampling-based Bayesian inference	6
The effectiveness of various control strategies: An insight from a comparison modelling study	6
Internal phosphorus recycling promotes rich and complex dynamics in an algae-phosphorus model: Implications for eutrophication management	6
A mathematical model of microglia glucose metabolism and lactylation with positive feedback	6
Statistical inference and neural network training based on stochastic difference model for air pollution and associated disease transmission	6
A hybrid approach to study and forecast climate-sensitive norovirus infections in the USA	6
PULSAR Effect: Revealing potential synergies in combined radiation therapy and immunotherapy via differential equations	6
Chaos in memory function of sleep: A nonlinear dynamical analysis in thalamocortical study	5
Optimal heat transport induced by magnetic nanoparticle delivery in vascularised tumours	5
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The central role of host reproduction in determining the evolution of virulence in spatially structured populations	5
Temperate and chronic virus competition leads to low lysogen frequency	5
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Network structural metrics as early warning signals of widespread vaccine refusal in social-epidemiological networks	5
Spatial distribution of gut microbes along the intestinal duct	5
Peripheral straightness leads to shape diversification during formations of entire leaves	5
A mathematical framework for the emergence of winners and losers in cell competition	5
Mathematical modelling of autoimmune myocarditis and the effects of immune checkpoint inhibitors	5
Modeling the heterogeneous apoptotic response of caspase-mediated signaling in tumor cells	5
Channel noise induced stochastic effect of Hodgkin–Huxley neurons in a real classification task	5
Counting unique molecular identifiers in sequencing using a multi-type branching process with immigration	5
Computational model of the cancer necrotic core formation in a tumor-on-a-chip device	5
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Modeling the synergistic properties of drugs in hormonal treatment for prostate cancer	5
Lockhart with a twist: Modelling cellulose microfibril deposition and reorientation reveals twisting plant cell growth mechanisms	5
Olfactory encoding within the insect antennal lobe: The emergence and role of higher order temporal correlations in the dynamics of antennal lobe spiking activity	5
MMM – The molecular model of memory	5
Editorial Board	5
An analytical, numerical and experimental study of in-vitro SARS-CoV-2 evolution in Vero B4 cells	5
Population-level heterogeneity as a reflection of mixed strategy: A computational perspective on the Crabtree effect	5
Emergence of broad cytosolic Ca2+ oscillations in the absence of CRAC channels: A model for CRAC-mediated negative feedback on PLC and Ca2+ oscillations through PKC	5
Identifying critical regulatory interactions in cell fate decision and transition by systematic perturbation analysis	5
Mathematical models of long term evolution of blue whale song types’ frequencies	5
Editorial Board	5
Selection by differential survival among marine animals in the Phanerozoic	5
Competitive evolution of H1N1 and H3N2 influenza viruses in the United States: A mathematical modeling study	5
Dynamics of a ratio-dependent population model for Green Sea Turtle with age structure	5
Maintaining the proliferative cell niche in multicellular models of epithelia	5
Cooperative SIR dynamics as a model for spontaneous blood clot initiation	5
Pólya-splitting distributions as stationary solutions of multivariate birth–death processes under extended neutral theory	5
Modelling aspects of consciousness: A topological perspective	5
Mathematical modeling of tumor-immune system interactions: the effect of rituximab on breast cancer immune response	5
A mechanistic systems pharmacology modeling platform to investigate the effect of PD-L1 expression heterogeneity and dynamics on the efficacy of PD-1 and PD-L1 blocking antibodies in cancer	5
Resource allocation in tragedy of the commons game in plants for belowground competition	5
A data-driven method to learn a jump diffusion process from aggregate biological gene expression data	5
Phase synchronization analysis of EEG functional connectivity in Parkinson’s disease	5
Fluid dynamic simulation suggests hopping locomotion in the Ordovician trilobite Placoparia	5
Long-term effects of non-pharmaceutical interventions on total disease burden in parsimonious epidemiological models	5
Network-based uncertainty quantification for mathematical models in epidemiology	5
Evaluation of entropy and fractal dimension as biomarkers for tumor growth and treatment response using cellular automata	5
Modeling phyllotaxis: From the inhibition potential to the real plant	5
Dynamics of cell-type transition mediated by epigenetic modifications	5
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The effect of variability in payoffs on average abundance in two-player linear games under symmetric mutation	5
Exploring COVID-19 transmission patterns and key factors during epidemics caused by three major strains in Asia	4
Rules of nature’s Formula Run: Muscle mechanics during late stance is the key to explaining maximum running speed	4
Optic flow enrichment via Drosophila head and retina motions to support inflight position regulation	4
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Application of a count data model to evaluate the anti-metastatic efficacy of QAP14 in 4T1 breast cancer allografts	4
Antibody protection from SARS-CoV-2 respiratory tract exposure and infection	4
What explains the poor contraction of the viral load during paediatric HIV infection?	4
Perivascular pumping in the mouse brain: Improved boundary conditions reconcile theory, simulation, and experiment	4
Modeling transposable elements dynamics during polyploidization in plants	4
A mathematical model of cell movement and clustering due to chemotaxis	4
Hamilton’s rule, gradual evolution, and the optimal (feedback) control of phenotypically plastic traits	4
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Excitable dynamics in a molecularly-explicit model of cell motility: Mixed-mode oscillations and beyond	4
Propagation of an idealized infection in an airway tree, consequences of the inflammation on the oxygen transfer to blood	4
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Individual variation in susceptibility or exposure to SARS-CoV-2 lowers the herd immunity threshold	4
Weak selection helps cheap but harms expensive cooperation in spatial threshold dilemmas	4
The dynamics of relapses during treatment switch in relapsing-remitting multiple sclerosis	4
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The relative importance of social information use for population abundance in group-living and non-grouping prey	4
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Structural patterns of SARS-CoV-2 variants of concern (alpha, beta, gamma, delta) spike protein are influenced by variant-specific amino acid mutations: A computational study with implications on vira	4
Modelling the impact of repeat asymptomatic testing policies for staff on SARS-CoV-2 transmission potential	4
Novel type of coagulation equation and its application to DNA repeat expansion process	4
Stochastic diffusion characterises early colony formation in Mediterranean coral Corallium rubrum	4
Modelling the epidemiological implications for SARS-CoV-2 of Christmas household bubbles in England	4
Co-adaptive behavior of interacting populations in a habitat selection game significantly impacts ecosystem functions	4
Algorithmic asymptotic analysis: Extending the arsenal of cancer immunology modeling	4
Stoichiometric microplastics models in natural and laboratory environments	4
The optimal controlling strategy on a dispersing population in a two-patch system: Experimental and theoretical perspectives	4
Stochasticity-induced persistence in coupled social-ecological systems	4