Difference between revisions of "20141022 - Phenotype2GO Pipeline"
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This page summarizes how the Phenotype2GO-based GO annotations will be handled for the WormBase builds and GO uploads. | This page summarizes how the Phenotype2GO-based GO annotations will be handled for the WormBase builds and GO uploads. | ||
| + | |||
| + | =Source of Annotations= | ||
| + | *Phenotype2GO-based annotations are generated as part of the WB build based upon the presence of a phenotype associated with a perturbation of gene activity. | ||
| + | *The perturbation may be an RNAi experiment or a variation. | ||
| + | *If the perturbation is an RNAi experiment, we will only associate the GO annotations with phenotypes resulting from disruption of the primary target. Secondary targets will not be used for Phenotype2GO annotations. | ||
=Source of Phenotype2GO Mappings= | =Source of Phenotype2GO Mappings= | ||
*All mappings between WB Phenotype Ontology and Gene Ontology terms are submitted during the build in a separate .ace file submitted by Ranjana. | *All mappings between WB Phenotype Ontology and Gene Ontology terms are submitted during the build in a separate .ace file submitted by Ranjana. | ||
*No mappings are present in the ?Phenotype objects submitted separately during the build, as this would have the potential to overwrite mappings coming from the GO curators. | *No mappings are present in the ?Phenotype objects submitted separately during the build, as this would have the potential to overwrite mappings coming from the GO curators. | ||
Revision as of 16:24, 22 October 2014
This page summarizes how the Phenotype2GO-based GO annotations will be handled for the WormBase builds and GO uploads.
Source of Annotations
- Phenotype2GO-based annotations are generated as part of the WB build based upon the presence of a phenotype associated with a perturbation of gene activity.
- The perturbation may be an RNAi experiment or a variation.
- If the perturbation is an RNAi experiment, we will only associate the GO annotations with phenotypes resulting from disruption of the primary target. Secondary targets will not be used for Phenotype2GO annotations.
Source of Phenotype2GO Mappings
- All mappings between WB Phenotype Ontology and Gene Ontology terms are submitted during the build in a separate .ace file submitted by Ranjana.
- No mappings are present in the ?Phenotype objects submitted separately during the build, as this would have the potential to overwrite mappings coming from the GO curators.
