Changes between Version 3 and Version 4 of Modification


Ignore:
Timestamp:
Jan 27, 2015, 1:40:28 PM (6 years ago)
Author:
vw253
Comment:

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Added
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  • Modification

    v3 v4  
    99|| added_by || ID of modifier || added_by(cwee1) || ensure that you have annotated the  modifier with the molecular fiunction and substrate||
    1010|| removed_by || ID of modifier || removed_by(cdc25)|| ensure that you have annotated the  modifier with the molecular fiunction and substrate||
    11 ||added_during|| GO identifier || exmaple required|| -||
    12 || present_during|| GO identifier || example required|| -||
    13 ||removed_during || GO identifier || example required|| -||
     11||added_during|| GO identifier || exmaple required||  If the data shows "active" addition  at a certain time||
     12||removed_during || GO identifier || removed_during(GO:0000080) ||  If the data shows "active" removal at a certain time||
     13||present_during|| GO identifier || present_during(GO:0000080)|| If the data shows a modification is present but not when it was added||
    1414|| absent_during || GO identifier || example required|| -||
    1515||level_fluctuates_during || GO identifier || example required|| -||
     
    2222 
    2323 * See [wiki:AnnotationExtensionSyntax AnnEx Syntax] and [wiki:DescribingResidues describing residues modified or mutated] for "residue=" syntax
    24 
    25 
    2624 * If you know when the modification is (or isn't) present:
    27   * If the data shows "active" addition or removal at a certain time, use added_during or removed_during, e.g. annotation_extension=removed_during(GO:0000080)
     25 
    2826  * Otherwise, you can use present_during or absent_during to make a less strong statement, e.g. annotation_extension=present_during(GO:0000080)
    2927 * For annotations which involve a "target gene" of this type which are not "protein modification" annotations we only capture the  target gene as an annotation extension, and the reciprocal annotation  (gene B is TARGET_OF Gene A) will be inferred later