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ModelSEED Biochemistry

kbase_msd_biochemistry

Primary

Philosophy

Enable metabolic modeling and pathway analysis. Map genes to reactions, understand metabolic capabilities, and support flux balance analysis.

Data sources: ModelSEED KEGG MetaCyc

Citation & Attribution

Provider: ModelSEED / Henry Lab

Website: https://modelseed.org/

Scale

4
tables

Schema Browser

Tables (5)

reaction 56,012 molecule 45,708 reagent 262,517 structure 97,490 reaction_similarity

structure 97,490 rows

Column Type Description
molecule_id string FK -> `molecule.id`
type string Structure type (SMILES, InChIKey)
value string Structure string

Sample Queries

Get reactions

SELECT *
FROM kbase_msd_biochemistry.reaction
LIMIT 20

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Access the full ModelSEED Biochemistry data through BERDL JupyterHub.

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