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)
iAF1260.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
PMC1911197-f1.jpg
Joint Photographic Experts Group (JPEG)
PMC1911197-f2.jpg
PMC1911197-f3.jpg
PMC1911197-f4.jpg
PMC1911197-f5.jpg
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:iAF1260
Adam M Feist, Christopher S Henry, Jennifer L Reed, Markus Krummenacker, Andrew R Joyce, Peter D Karp, Linda J Broadbelt, Vassily Hatzimanikatis & Bernhard Ø Palsson. A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655 that accounts for 1260 ORFs and thermodynamic information. Molecular Systems Biology 3: 121 (2007).
BiGG
Steady state
flux balance analysis
SBML
SED-ML
COMBINE/OMEX
COBRApy 0.24.0
621d9002d8a14a834cbf74e9
metabolic process
Escherichia coli str. K-12 substr. MG1655, complete genome
Escherichia coli str. K-12 substr. MG1655
Systems Biology Research Group at the University of California, San Diego
Jonathan R. Karr
View project essentials in the liteweight Reproducibility Portal.