Metabolic reference files for SolveEverything Tool 17 (scRNA–Metabolomics Integrator)

human-gem.json is derived from Human-GEM 2.1.1 (commit 6812be2a5c1504a89ea9e84d770786a84f5f3ce2), https://github.com/SysBioChalmers/Human-GEM
mouse-gem.json is derived from Mouse-GEM 1.8.0 (commit fc769ac1da421c4e4e9e1cf2a9aec3fe4f02ef6a), https://github.com/SysBioChalmers/Mouse-GEM
Both by SysBioChalmers and contributors, licensed under Creative Commons Attribution 4.0 International (CC BY 4.0);
full license text: LICENSE-CC-BY-4.0.md in this folder, or https://creativecommons.org/licenses/by/4.0/

Changes made: the models were reduced to metabolite names and cross-references (KEGG, HMDB, ChEBI, PubChem, LIPID MAPS,
formula), gene-reaction rules, reaction names, direction and subsystem. Exchange, sink/demand, biomass, pool and other
artificial reactions, and non-transport reactions without gene associations, were removed. Human gene symbols were added
from the Human-GEM genes table. Generated by scripts/build-metabolic-kb.py on 2026-10-25.

Please cite:
Robinson JL, Kocabaş P, Wang H, et al. An atlas of human metabolism. Sci Signal. 2020;13(624):eaaz1482.
Wang H, Robinson JL, Kocabaş P, et al. Genome-scale metabolic network reconstruction of model animals as a platform for
translational research. Proc Natl Acad Sci USA. 2021;118(30):e2102344118.