Changes between Initial Version and Version 1 of GeneralAnnotationExtensionGuidelines


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Timestamp:
Jan 29, 2015, 4:45:36 PM (6 years ago)
Author:
vw253
Comment:

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  • GeneralAnnotationExtensionGuidelines

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     4== Annotation Extensions Field (annotation extension/allele/residue/qualifier) ==
     5 * Annotation extension format: Relation(Database prefix:database_ID)
     6 * [wiki:AnnotationExtensionSyntax Syntax used for extensions]
     7 * ListOfRelations List of relations used in !PomBase annotation extensions
     8 * OntologiesInUse Ontologies used in annotation extension
     9 * [wiki:GOAnnotationGuidelines#GOAnnotationExtensions PomBase GO annotation extension guidelines]
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     12  * Multiple entries can be added, comma (,) separated. This field can temporarily be used to capture:
     13   * annotation extension=,
     14   * residue=  [wiki:DescribingResidues describing residues modified or mutated]
     15    * Restrictions: Residue= should only be used with Modification, Protein Sequence Feture or GO protein binding terms to specify a particular residue or region bound (we may extend this to other MF to capture active sites etc)
     16   * If you want to specify a modifying enzyme, do this on the modification: annotation_extension=annotation_extension=added_by(PomBase:nnnnn),annotation_extension=added_during(GO:0030702)
     17   * Phenotypes: see Phenotype section above
     18    * note: used to use extension field for alleles and conditions, but the curation tool now supports those directly (much better!)