UniProt-GOA datasources: Difference between revisions
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UniProt-GOA maintains annotations from several sources. Not all these sources are in the [https://github.com/geneontology/go-site/blob/master/metadata/datasets/goa.yaml | UniProt-GOA maintains annotations from several sources. Not all these sources are in the [https://github.com/geneontology/go-site/blob/master/metadata/datasets/goa.yaml goa.yaml file], only those for which GOA produces a separate GAF/GPAD file. | ||
This is the full list of | This is the full list of data sources is here [https://ftp.ebi.ac.uk/pub/contrib/goa/GO.annotation_sources]. | ||
==GOA internal sources== | ==GOA internal sources== | ||
Line 7: | Line 7: | ||
* AgBase | * AgBase | ||
* | * Alzheimers_University_of_Toronto | ||
* BHF-UCL | * BHF-UCL | ||
** ARUK-UCL | |||
** HGNC-UCL | |||
** ParkinsonsUK-UCL | |||
* CACAO | * CACAO | ||
* CBI Computational Genomics Group | * CAFA | ||
* CBI Computational Genomics Group (CCG) | |||
* DFLAT | * DFLAT | ||
* | * dictyBase | ||
* | * FlyBase | ||
* | * Human Genome Database (GDB) | ||
* GO_Central | * GO_Central | ||
* Gramene | * Gramene (GR) | ||
* HGNC | * HGNC | ||
* J. Craig Venter Institute (JCVI) | |||
* J. Craig Venter Institute | |||
* LIFEdb | * LIFEdb | ||
* Microbial ENergy processes Gene Ontology Project | * Microbial ENergy processes Gene Ontology Project (MENGO) | ||
* MTBBASE | * MTBBASE | ||
* | * NTNU_SB | ||
* | * PAMGO_MGG | ||
* | * PINC | ||
* | * Roslin_Institute | ||
* | * Structure-Function Linkage Database (SFLD) | ||
* SGD | * SGD | ||
* | * SYSCILIA_CCNET | ||
* SynGO | * SynGO | ||
* SynGO-UCL | * SynGO-UCL | ||
* TIGR | * TIGR | ||
* UniProt | * UniProt | ||
* WormBase (WB) | |||
* WormBase ( | |||
* YuBioLab | * YuBioLab | ||
'''Automated pipelines''' | |||
* EC2GO GO_REF:0000002 | |||
* Ensembl Compara GO_REF:0000107 | |||
* EnsemblFungi GO_REF:0000107 | |||
* EnsemblMetazoa GO_REF:0000107 | |||
* EnsemblPlants GO_REF:0000107 | |||
* EnsemblProtists GO_REF:0000107 | |||
* GOC GOC Gene Ontology Consortium GO_REF:0000108 | |||
* InterPro2GO GO_REF:0000002 | |||
* RNAcentral GO_REF:0000115 | |||
* UniPathway2GO GO_REF:0000041 | |||
* UniProt Keywords2GO GO_REF:0000004 | |||
* UniProt Subcellular Location2GO GO_REF:0000023 | |||
* UniRule2GO GO_REF:0000104 | |||
==GOCentral/ Noctua Internal sources== | |||
* GO_Central (IBA) -> separately loaded by the GO pipeline - GOREF:0000033 | |||
* MGI | |||
* XenBase | |||
* ZFIN | |||
== Review Status == | == Review Status == | ||
Last reviewed: November | Last reviewed: November 30, 2023 | ||
[[Category:Release Pipeline]] | [[Category:Release Pipeline]] |
Latest revision as of 15:40, 18 December 2023
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 data sources is here [1].
GOA internal sources
Those are fully integrated into Protein2GO and in the GOA database, and are edited via Protein2GO
- AgBase
- Alzheimers_University_of_Toronto
- BHF-UCL
- ARUK-UCL
- HGNC-UCL
- ParkinsonsUK-UCL
- CACAO
- CAFA
- CBI Computational Genomics Group (CCG)
- DFLAT
- dictyBase
- FlyBase
- Human Genome Database (GDB)
- GO_Central
- Gramene (GR)
- HGNC
- J. Craig Venter Institute (JCVI)
- LIFEdb
- Microbial ENergy processes Gene Ontology Project (MENGO)
- MTBBASE
- NTNU_SB
- PAMGO_MGG
- PINC
- Roslin_Institute
- Structure-Function Linkage Database (SFLD)
- SGD
- SYSCILIA_CCNET
- SynGO
- SynGO-UCL
- TIGR
- UniProt
- WormBase (WB)
- YuBioLab
Automated pipelines
- EC2GO GO_REF:0000002
- Ensembl Compara GO_REF:0000107
- EnsemblFungi GO_REF:0000107
- EnsemblMetazoa GO_REF:0000107
- EnsemblPlants GO_REF:0000107
- EnsemblProtists GO_REF:0000107
- GOC GOC Gene Ontology Consortium GO_REF:0000108
- InterPro2GO GO_REF:0000002
- RNAcentral GO_REF:0000115
- UniPathway2GO GO_REF:0000041
- UniProt Keywords2GO GO_REF:0000004
- UniProt Subcellular Location2GO GO_REF:0000023
- UniRule2GO GO_REF:0000104
GOCentral/ Noctua Internal sources
- GO_Central (IBA) -> separately loaded by the GO pipeline - GOREF:0000033
- MGI
- XenBase
- ZFIN
Review Status
Last reviewed: November 30, 2023