Manager Call 2015-12-16: Difference between revisions

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**RNA central IDs (RNAcentral:)
**RNA central IDs (RNAcentral:)
**HGNC IDs (HGNC:)
**HGNC IDs (HGNC:)
This is what is loaded in the Noctua-Entity-Ontology
* MOD IDs (MGI:MGI:, FBL, etc)
** We strictly follow the go-site xref metadata https://github.com/geneontology/go-site/blob/master/metadata/db-xrefs.yaml  (browsable in amigo - http://amigo.geneontology.org/xrefs
** **WE WILL BE CHANGING MGI** - we will drop the additional MGI: as this causes massive problems
* UniProtKB:
** The MOD ID takes precedence over the UniProtKB ID in Noctua, but based on feedback from Geneva we will allow curators to enter the UniProtKB ID, but this will still be resolved as a MOD ID if there is a MOD for the product
** In NEO, we formally commit to the entity being uncommitted w.r.t gene vs product. Ie we use MOD IDs and UniProtKBs interchangeably
* ENSEMBL IDs: not currently loaded -- but we may allow these for search
* NCBIGene: ditto
* HGNC: ditto
* RNAcentral: will be loaded soon




[[Category:GO Managers Meetings]]
[[Category:GO Managers Meetings]]

Revision as of 08:16, 15 December 2015

Brief Geneva-LEGO report

Acceptable Gene Identifiers (Can we get a decision on this?)

Is this the rule?

  • IDs used to represent genes
    • MOD gene identifiers (MGI:MGI:, WB:, ZFIN:ZDB-GENE-, TAIR:locus: etc)
    • Generic UniprotKB Ids (UniProtKB:)
    • ENSEMBL gene IDs (Ensembl:)
    • NCBI gene IDs (NCBI_gene:)
    • RNA central IDs (RNAcentral:)
    • HGNC IDs (HGNC:)

This is what is loaded in the Noctua-Entity-Ontology

  • MOD IDs (MGI:MGI:, FBL, etc)
  • UniProtKB:
    • The MOD ID takes precedence over the UniProtKB ID in Noctua, but based on feedback from Geneva we will allow curators to enter the UniProtKB ID, but this will still be resolved as a MOD ID if there is a MOD for the product
    • In NEO, we formally commit to the entity being uncommitted w.r.t gene vs product. Ie we use MOD IDs and UniProtKBs interchangeably
  • ENSEMBL IDs: not currently loaded -- but we may allow these for search
  • NCBIGene: ditto
  • HGNC: ditto
  • RNAcentral: will be loaded soon