CBMPy biochemical network simulation program via BioSimulators-compliant command-line interface and Docker container
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Updated
Feb 23, 2022 - Python
CBMPy biochemical network simulation program via BioSimulators-compliant command-line interface and Docker container
Flux Capacitor toolkit for systems biology
Source code and information for journal article Social dynamics and modeling of chrono-nutrition
Python implementation of FastSL
A demo repository with example code for using the Systems Biology Simulation Core Library (SBSCL).
"Maps for when the living gets tough: Maneuvering through a hostile energy landscape" | Mondeel, Thierry D.G.A. Rehman, Samrina Zhang, Yanfei Verma, Malkhey Dürre, Peter Barberis, Matteo Westerhoff, Hans V. | 2016 | IFAC-PapersOnLine |
Figure 5 - Learning to read and write in evolution: from static pseudoenzymes and pseudosignalers to dynamic gear shifters
Analysis of neutrophil metabolic activity during metastasis using single-cell RNASeq and COnstraint-Based Reconstruction and Analysis.
A metabolic modeling workflow for communities of organisms in an nasal medium.
Analysis of neutrophil metabolic activity during metastasis using single-cell RNASeq and COnstraint-Based Reconstruction and Analysis.
This repository introduces the codes applied to the nasal microbial community of the latest available curated GEMs of D. pigrum and S. aureus.
Common biochemical and topological attributes of metabolic genes recurrently dysregulated in tumors.
Modeling the metabolic changes during the epithelial-to-mesenchymal transition.
Core cancer metabolism model of Palsson et al: https://rdcu.be/Olwc
This collection of tools forms the basis of a pipeline for the complete enumeration of the number of solutions present in a model that maximizes a single objective function
Bi-level regularized flux balance analysis of Synechococcus spp. PCC 7002
Matlab code and data to reproduce results from "Reconstruction and Validation of a Genome-Scale Metabolic Model for the Filamentous Fungus Neurospora crassa Using FARM" by Dreyfuss, Zucker, et al.
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