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- gene_association.sgd.gz This file is TAB delimited and contains all GO annotations for yeast genes (protein and RNA)
- The gene_association.sgd.gz file uses the standard file format for
- gene_association files of the Gene Ontology (GO) Consortium. A more
- complete description of the file format is found here:
- http://www.geneontology.org/GO.format.annotation.shtml
- Columns are: Contents:
- 1) DB - database contributing the file (always "SGD" for this file)
- 2) DB_Object_ID - SGDID
- 3) DB_Object_Symbol - see below
- 4) NOT (optional) - 'NOT', 'contributes_to', or 'colocalizes_with' qualifier for a GO annotation, when needed
- 5) GO ID - unique numeric identifier for the GO term
- 6) DB:Reference(|DB:Reference) - the reference associated with the GO annotation
- 7) Evidence - the evidence code for the GO annotation
- 8) With (or) From (optional) - any With or From qualifier for the GO annotation
- 9) Aspect - which ontology the GO term belongs in
- 10) DB_Object_Name(|Name) (optional) - a name for the gene product in words, e.g. 'acid phosphatase'
- 11) DB_Object_Synonym(|Synonym) (optional) - see below
- 12) DB_Object_Type - type of object annotated, e.g. gene, protein, etc.
- 13) taxon(|taxon) - taxonomic identifier of species encoding gene product
- 14) Date - date GO annotation was made
- 15) Assigned_by - source of the annotation (e.g. SGD, UniProtKB, YeastFunc, bioPIXIE_MEFIT)
- Note on SGD nomenclature (pertaining to columns 3 and 11):
- Column 3 - When a Standard Gene Name (e.g. CDC28, COX2) has been
- conferred, it will be present in Column 3. When no Gene Name
- has been conferred, the Systematic Name (e.g. YAL001C,
- YGR116W, YAL034W-A) will be present in column 3.
- Column 11 - The Systematic Name (e.g. YAL001C, YGR116W, YAL034W-A,
- Q0010) will be the first name present in Column 11. Any other
- names (except the Standard Name, which will be in Column 3 if
- one exists), including Aliases used for the gene will also be
- present in this column.
- Please note that ORFs classified as 'Dubious' are not included in this file, as there is currently
- no experimental evidence that a gene product is produced in S. cerevisiae.
- This file is updated weekly.
- For more information on the Gene Ontology (GO) project, see:
- http://www.geneontology.org/
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