UniProt-GOA datasources

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UniProt-GOA maintains annotations from several sources. Not all these sources are in the GOA.yaml file, only those for which GOA produces a separate GAF/GPAD file.

This is the full list of datasts maintained by GOA, as of Nov 1, 2019.

Up to date data is here: ftp://ftp.ebi.ac.uk/pub/contrib/goa/P2GO_SOURCES.dat

GOA internal sources

Those are fully integrated into Protein2GO and in the GOA database, and are edited via Protein2GO

  • AgBase
  • Alzheimers Project at University of Toronto
  • AlzheimersResearchUK-UCL
  • Automated Function Prediction SIG CAFA Experiment (BHF-UCL Curators)
  • Automated Function Prediction SIG CAFA Experiment (UniProt Curators)
  • BHF-UCL
  • CACAO
  • CBI Computational Genomics Group
  • Complex Portal (via Protein2GO)
  • DFLAT
  • DictyBase (specific GAF file generated)
  • Evelyn's spkw2go file
  • FlyBase (specific GAF file generated)
  • GDB
  • GO_Central
  • Gramene
  • HGNC
  • HGNC-UCL
  • J. Craig Venter Institute
  • LIFEdb
  • Microbial ENergy processes Gene Ontology Project
  • MTBBASE
  • NTNU
  • PAMGO M. grisea
  • ParkinsonsUK-UCL
  • Proteome Inc
  • Roslin Institute
  • SGD (specific GAF file generated)
  • Structure-Function Linkage Database
  • SynGO
  • SynGO-UCL (UCL Curators)
  • SYSCILIA_CCNET
  • TAIR (via CCC)
  • TIGR
  • UniProt (EBI Curators)
  • UniProt (PIR Curators)
  • UniProt (SIB Curators)
  • WormBase (specific GAF file generated)
  • YuBioLab

GOA external sources: Integrated in GOA for viewing; reloaded daily

  • D.Hill's spkw2go file
  • EcoCyc**
  • EcoliWiki**
  • GeneDB P. falciparum**
  • GO Reference Genomes -> separately loaded by the GO pipeline
  • Human Protein Atlas (obtained from https://www.proteinatlas.org/download/subcellular_location.tsv.zip)
  • MGI -> separately loaded by the GO pipeline
  • PomBase -> separately loaded by the GO pipeline
  • PseudoCAP -> separately loaded by the GO pipeline
  • RGD -> separately loaded by the GO pipeline
  • SGN**
  • SynGO (via Noctua) -> OK has its own file location
  • ZFIN -> separately loaded by the GO pipeline
 ** Need to have a location of the GAF file compliant with the guidelines (ie, not on the GO SVN).

Review Status

Last reviewed: November 1, 2019