Changes between Version 27 and Version 28 of GOAnnotationGuidelines


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Timestamp:
Feb 25, 2015, 9:41:05 AM (6 years ago)
Author:
vw253
Comment:

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  • GOAnnotationGuidelines

    v27 v28  
    66 * [http://www.geneontology.org/GO.ontology.structure.shtml General Ontology structure] (Includes Cross Products and Logical Definitions)
    77 * [http://www.geneontology.org/GO.ontology-ext.relations.shtml Ontology relations]
    8  * [http://www.geneontology.org/GO.process.guidelines.shtml Biological Process] Every process should have a discrete '''beginning''' and '''end''', and these should be clearly stated in the process term definition. Note, however, that this work is still in progress for GO.
     8 * [http://www.geneontology.org/GO.process.guidelines.shtml Biological Process]
    99 * [http://www.geneontology.org/GO.function.guidelines.shtml Molecular Function]
    1010 * [http://www.geneontology.org/GO.component.guidelines.shtml Cellular Component]
     
    7171== Specific GO Annotation Guidelines for !PomBase ==
    7272
    73 === Recommended Terms ===
    74 In many cases, the best GO term to use for a process or component in pombe is more specific than the term that mot closely matches wordings we typically find in papers. For example, see "DNA replication" or "sporulation" below. We maintain a file that maps more general GO terms to more specific ones that can always be substituted for pombe annotations. The mapping file is in the dropbox at Dropbox/pombase/ontologies/GO/mappings/GO_mapping_to_specific_terms.txt
    75 
    76 If you don't want a substitution to happen automatically, use a more specific term in the first place. If you find many exceptions to the mapping, change or delete it.
     73=== Annotation Specificity ===
     74
    7775
    7876==== Biological Process ====
     77
     78 Every process should have a discrete '''beginning''' and '''end''', and these should be clearly stated in the process term definition. Note, however, that this work is still in progress for GO.
     79
    7980 * Regulation
    8081  * Lots of discussion going on among !PomBase curators and with other GO annotators, about when to annotate to regulation terms and when not. It's also connected with filling in start and end details for the process terms that still need them. Conclusions will be posted or linked here. (2012-06-07)