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Physiome Model Repository
A repository of computational models of physiological systems -
Practical Resources for Enhancing the Reproducibility of Mechanistic Modeling...
A collection of resources for enhancing the reproducibility of mechanistic modeling in systems biology -
Central Carbon Metabolism Model
Benchmark kinetic model of central carbon metabolism of Escherichia coli modeled by a system of 18 linear ODEs with 116 unknown parameters. -
Three-step Pathway Model
Benchmark kinetic model of a biological network for a three-step pathway modeled by 8 nonlinear ODEs describing 8 metabolic concentrations and 36 parameters. -
Identification of Parameters for Large-scale Kinetic Models
Numerical method for the inverse problem on the identification of parameters for large-scale systems of non-linear ordinary differential equations (ODEs) arising in systems... -
Simulated E. coli network data
The dataset used in this paper is a simulated data set, generated using the E. coli network. -
E. coli glucose pulse response
The dataset used in this paper is a real-world bacterial data set, specifically the response of the bacterium E. coli to a glucose pulse. -
Controlling the ribosomal density profile in mRNA translation
The ribosome flow model (RFM) is a mathematical model for mRNA translation. The model describes the dynamics of the ribosomal density profile along the mRNA molecule and the... -
Biological Regulatory Networks
The dataset used in the paper is a collection of five real biological networks and five random networks with similar topological features.
