Flybase
FlyBase is the model organism database providing integrated genetic, genomic, phenomic, and biological data for Drosophila melanogaster.
Gene Literature
This ingest uses FlyBase's publication-to-gene download file, which contains all entities and only assocations between publications and genes that are denoted in some way in the publication. We have selected to use a consistent high level term for 'publication' (IAO:0000311) as it is heterogeneous mix of publication types being referenced. We have also opted to use the FlyBase_publication_id for the publication node if PubMed_id is not available, on the assumption that kgx will clique merge them later.
Biolink captured
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biolink:Gene
- id
-
biolink:Publication
- id
-
biolink:InformationContentEntityToNamedThingAssociation
- id (random uuid)
- subject (gene.id)
- predicate (mentions)
- object (publication.id)
- aggregating_knowledge_source (["infores:monarchinitiative"])
- primary_knowledge_source (infores:flybase)
Citation
Gramates LS, Agapite J, Attrill H, Calvi BR, Crosby M, dos Santos G Goodman JL, Goutte-Gattat D, Jenkins V, Kaufman T, Larkin A, Matthews B, Millburn G, Strelets VB, and the FlyBase Consortium (2022) FlyBase: a guided tour of highlighted features. Genetics, Volume 220, Issue 4, April 2022, iyac035