Genome-scale metabolic models

EcopanGEM Browser

Interactive explorer for 2,313 E. coli strain-specific genome-scale metabolic models (GEMs)

Open Flux Studio Analytics and comparison compare models, contrast cohorts, build clustermaps, explore the species tree
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GEMs Available
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Phylogroups
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MLST Types
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Countries
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Page Views
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GEM Downloads
Live usage since launch · updated hourly
Simulate any of these models in Flux Studio Thirteen analyses — flux balance, knockouts, gene essentiality, flux sampling, strain design — on 12,340 curated growth media. Nothing installs and nothing uploads: the solver runs in your own browser tab.
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The collection at a glance
2,313 E. coli genome-scale models — model size, phylogroup composition, and where the strains were isolated.
Model size distribution
Distribution of reactions / genes / metabolites across all 2,313 strain models.
Genomes per phylogroup
Coloured by phylogroup · click a bar to filter the table below.
Isolation geography
Strains with a recorded isolation country, shaded by number of models. Hover for details · click a country to filter the table below.
0– models per country
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Columns 0 of 0 shown

Loading GEM metadata...

How to use: Filter or search the table to find GEMs of interest. Click the Columns button to show/hide metadata columns. Click rows to select them, then use "Copy Selected GEM Filenames" to get the exact filenames inside the Zenodo archive (Ecoli_GEMs_for_Complete_genomes.zip). To extract specific GEMs: unzip Ecoli_GEMs_for_Complete_genomes.zip "Ecoli_GEMs_for_Complete_genomes/562.12345.json.json"