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Goldbeter1991 - Min Mit Oscil
A minimal model for the mitotic oscillator in early amphibian embryos, representing cyclin-driven activation of cdc2 kinase, cdc2-driven activation of cyclin protease, and delayed negative feedback through cyclin degradation.
Malinzi2018 - Enhancement of chemotherapy using oncolytic virotherapy
IA spatio-temporal mathematical model, in the form of a moving boundary problem, to explain cancer dormancy. Analysis covers temporal and spatio-temporal cases, stability, travelling waves, minimum invasion wave speeds, and numerical simulations of immune-induced tumour dormancy.
Nwabugwu2013 - A Tumor-Immune Mathematical Model of CD4+ T Helper Cell
Its a mathematical model presenting the interaction between a growing tumor and immune system. Model involves tumor cells, dendritic cell, helper Tcells, regulatory Tcells, effector cells and certain cytokines (e.g. TGFbeta, IL10, IL2 ) produced by these cells. It represent a dynamic regulation of tumor production/killing by different immune cells and cytokines. Model is derived from Tessi-Roberton 2012.
viva-amici
A process-bigraph bridge that compiles Antimony or SBML models into AMICI per-model C++/SWIG extensions and integrates them with SUNDIALS CVODES, exposing time-stepped and one-shot simulation processes plus exponential-decay, Lotka-Volterra, and MAPK cascade composites.
viva-simbio
A process-bigraph wrapper for simbio that represents chemical reaction networks using Antimony or reaction specifications, rebuilds Antimony through libantimony and libSBML, and integrates the resulting ODEs with simbio's LSODA solver. Species concentrations are exposed through shared stores and emitted as additive per-step deltas.
Spatio-Flux
Spatio-Flux composes independently developed processes including metabolism, spatial transport, particle dynamics, and structural rewrites into executable simulations through typed interfaces and shared orchestration.
mbmm
A general implementation of the Mechanistic Bayesian Mixture Model framework that embeds an application-specific ordinary differential equation trajectory model inside a Bayesian mixture likelihood evaluated against Approximate Bayesian Computation reference banks, with covariate-linked logistic or multinomial gates.
Vivarium-chemotaxis
A Vivarium model integrating receptor activity, flagellar motility, gene expression, transport, metabolism, membrane potential, growth, and division for Escherichia coli chemotaxis.