Changes between Version 55 and Version 56 of GOAnnotationGuidelines
- Timestamp:
- Feb 25, 2015, 4:26:19 PM (6 years ago)
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GOAnnotationGuidelines
v55 v56 33 33 GO annotation extensions capture specificity that would be undesirable in the ontology. See the [http://wiki.geneontology.org/index.php/Annotation_Extension GOC annotation extension documentation] 34 34 35 * Format The basic format isrelation(Database prefix:database_ID). Additional format/syntax documentation [AnnotationExtensionSyntax PomBase documentation for Annotation Extension Syntax]35 * Basic Format: relation(Database prefix:database_ID). Additional format/syntax documentation [AnnotationExtensionSyntax PomBase documentation for Annotation Extension Syntax] 36 36 37 * When to use an extension versus requesting a new term? See [wiki:PrePostComposeGO PomBase "Precompose or postcompose?" wiki]37 * When to use an extension versus requesting a new term? See [wiki:PrePostComposeGO PomBase "Precompose or postcompose?" wiki] 38 38 39 An exception to this rule is when a signalling pathway is activated by a number of different stresses. In this case the stress will be added as a "during..." extension. The rationale for this exception is that the specific annotations do not offer any obvious benefits to users (for enrichments etc). This would change if 2 distinct pathways were observed with distinct gene products annotated for each pathway (this test can be used to make decisions about further proposed exceptions). Note that you should continue to make a concurrent "response to x stress" for these gene products.40 39 41 40 * [http://wiki.geneontology.org/index.php/Annotation_Extension#The_basic_format GO annotation extension wiki]
