SolveEverything built-in pathway references
Prepared 19 October 2026. No experimental study dataset is included.

Reactome release 97 pathway names and gene membership annotations:
https://download.reactome.org/97/ReactomePathways.gmt.zip
https://download.reactome.org/97/Ensembl2Reactome_All_Levels.txt
Reactome database data and derived data files are dedicated under CC0-1.0:
https://reactome.org/license
https://creativecommons.org/publicdomain/zero/1.0/

Human symbol sets retain the official GMT memberships, with Reactome IDs
appended to names. Ensembl sets keep only gene IDs (not protein/transcript IDs)
for the named organism. Parent and child pathways are both present and overlap.

Mouse symbol sets join Reactome mouse Ensembl gene memberships to gene_symbol
annotations in Ensembl release 116 mouse protein FASTA headers:
https://ftp.ensembl.org/pub/release-116/fasta/mus_musculus/pep/Mus_musculus.GRCm39.pep.all.fa.gz
Ensembl project-generated data are available without restriction, subject to
the provider's data disclaimer:
https://www.ensembl.org/info/about/legal/disclaimer.html
85 gene memberships without a symbol match were omitted; set memberships are
deduplicated. No case conversion or human-to-mouse title-case conversion was used.

Mouse Reactome pathways include computational inference, not independent
experimental validation of every mouse pathway:
https://reactome.org/documentation/inferred-events

The catalog records source URLs, species, release, counts and SHA-256 for each
bundled asset. PROVENANCE.json records preparation inputs. No Reactome figure,
logo, website implementation, FoamTree software or article text is included.

Use all tested genes as background/rank input, not only significant DE genes.
Matching is exact and case-sensitive. Ensembl version suffixes are not removed.
Enrichment is an association and does not establish pathway activation or cause.