COPASI
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Related Items (61)
On the numerical solution of the general kinetic ``\(K\)-angle reaction system ⋮ Stability and phase transitions in a mathematical model of Duchenne muscular dystrophy ⋮ Computational biology analysis of platelet signaling reveals roles of feedbacks through phospholipase C and inositol 1,4,5-trisphosphate 3-kinase in controlling amplitude and duration of calcium oscillations ⋮ From Quantitative SBML Models to Boolean Networks ⋮ HRSSA - efficient hybrid stochastic simulation for spatially homogeneous biochemical reaction networks ⋮ Model selection for factorial Gaussian graphical models with an application to dynamic regulatory networks ⋮ A mathematical model representing cellular immune development and response to \textit{Salmonella} of chicken intestinal tissue ⋮ ODE Analysis of Biological Systems ⋮ Dynamic publication media with the COPASI R connector (CoRC) ⋮ Glycolysis in saccharomyces cerevisiae: algorithmic exploration of robustness and origin of oscillations ⋮ Springer Handbook of Bio-/Neuroinformatics ⋮ Methods of model reduction for large-scale biological systems: a survey of current methods and trends ⋮ Modularized smad-regulated TGF\(\beta \) signaling pathway ⋮ Insights into the dynamics of ligand-induced dimerisation via mathematical modelling and analysis ⋮ A nonlinear mathematical model of cell-mediated immune response for tumor phenotypic heterogeneity ⋮ Modeling the effect of Tat inhibitors on HIV latency ⋮ Parameterization of mechanistic models from qualitative data using an efficient optimal scaling approach ⋮ HSimulator: hybrid stochastic/deterministic simulation of biochemical reaction networks ⋮ Unnamed Item ⋮ Reconstructing the hidden states in time course data of stochastic models ⋮ Computational modeling of Quiescent Platelet Energy Metabolism in the Context of Whole-body Glucose Turnover ⋮ Activation of Contact Pathway of Blood Coagulation on the Lipopolysaccharide Aggregates ⋮ Approximation and inference methods for stochastic biochemical kinetics—a tutorial review ⋮ The Java environment for nature-inspired approaches (JENA): a workbench for biocomputing and biomodelling enthusiasts ⋮ Unnamed Item ⋮ Computational challenges in systems biology ⋮ Model of colonic inflammation: immune modulatory mechanisms in inflammatory bowel disease ⋮ Stochastic modelling of the eukaryotic heat shock response ⋮ Gene regulatory networks. Methods and protocols ⋮ Computational cell biology. Methods and protocols ⋮ A logic of behaviour in context ⋮ Nonlinear and temporal multiscale dynamics of gene regulatory networks: a qualitative simulator ⋮ Metabolic rate constants: some computational aspects ⋮ Systems Biology: The Next Frontier for Bioinformatics ⋮ Misinterpretation risks of global stochastic optimisation of kinetic models revealed by multiple optimisation runs ⋮ Reaction network realizations of rational biochemical systems and their structural properties ⋮ Coping with dynamical reaction system topologies using deterministic P modules: a case study of photosynthesis ⋮ Computing difference abstractions of linear equation systems ⋮ Analysing Biochemical Oscillation through Probabilistic Model Checking ⋮ Relating PDEs in Cylindrical Coordinates and CTMCs with Levels of Concentration ⋮ How Might Petri Nets Enhance Your Systems Biology Toolkit ⋮ Novel global sensitivity analysis methodology accounting for the crucial role of the distribution of input parameters: application to systems biology models ⋮ Mathematical models for immunology: current state of the art and future research directions ⋮ Modelling co-transcriptional cleavage in the synthesis of yeast pre-rRNA ⋮ Computational Heuristics for Simplifying a Biological Model ⋮ Probabilistic approximations of ODEs based bio-pathway dynamics ⋮ Petri net models for the semi-automatic construction of large scale biological networks ⋮ The FRiND model: a mathematical model for representing macrophage plasticity in muscular dystrophy pathogenesis ⋮ Component-based construction of bio-pathway models: the parameter estimation problem ⋮ Modeling non-homologous end joining ⋮ The union between structural and practical identifiability makes strength in reducing oncological model complexity: a case study ⋮ A computational model of auxin and pH dynamics in a single plant cell ⋮ Unnamed Item ⋮ The markup is the model: reasoning about systems biology models in the semantic web era ⋮ A geometric method for model reduction of biochemical networks with polynomial rate functions ⋮ Stochastic rate parameter inference using the cross-entropy method ⋮ Discrete Modeling of Biochemical Signaling with Memory Enhancement ⋮ Accuracy analysis of hybrid stochastic simulation algorithm on linear chain reaction systems ⋮ Distributed computation with continual population growth ⋮ Computational Software ⋮ MobsPy: a meta-species language for chemical reaction networks
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