Browse simulation projects
Browse simulator tools
Browse the docs
View full simulation details including customizable plots, files, logs, and more.
Project
Download File
Open Modeling and Exchange (OMEX)
iEC1349_Crooks.xml
Systems Biology Markup Language (SBML)
iJO1366.Central-metabolism.escher.json
Escher
iJO1366.Central-metabolism.png
Portable Network Graphics (PNG)
iJO1366.Central-metabolism.vg.json
Vega
iJO1366.Fatty-acid-beta-oxidation.escher.json
iJO1366.Fatty-acid-beta-oxidation.png
iJO1366.Fatty-acid-beta-oxidation.vg.json
iJO1366.Fatty-acid-biosynthesis--saturated-.escher.json
iJO1366.Fatty-acid-biosynthesis--saturated-.png
iJO1366.Fatty-acid-biosynthesis--saturated-.vg.json
iJO1366.Nucleotide-and-histidine-biosynthesis.escher.json
iJO1366.Nucleotide-and-histidine-biosynthesis.png
iJO1366.Nucleotide-and-histidine-biosynthesis.vg.json
iJO1366.Nucleotide-metabolism.escher.json
iJO1366.Nucleotide-metabolism.png
iJO1366.Nucleotide-metabolism.vg.json
LICENSE
TEXT
metadata.rdf
OMEX Metadata
simulation.sedml
Simulation Experiment Description Markup Language (SED-ML)
Outputs
JavaScript Object Notation (JSON) in BioSimulators simulator schema
Zip of HDF5 and PDF files
Log
JavaScript Object Notation (JSON) in BioSimulators log schema
bigg.model:iEC1349_Crooks
Jonathan M. Monk, Anna Koza, Miguel A. Campodonico, Daniel Machado, Jose Miguel Seoane, Bernhard O. Palsson, Markus J. Herrgård & Adam M. Feist. Multi-omics Quantification of Species Variation of Escherichia coli Links Molecular Features with Strain Phenotypes. Cell Systems 3, 3: 238-251.e12 (2016).
BiGG
Steady state
flux balance analysis
SBML
SED-ML
COMBINE/OMEX
COBRApy 0.24.0
621d900fd8a14a834cbf751f
metabolic process
Escherichia coli ATCC 8739, complete sequence
Escherichia coli ATCC 8739
Systems Biology Research Group at the University of California, San Diego
Jonathan R. Karr
View project essentials in the liteweight Reproducibility Portal.