Specifications for a GAF for gene-life stage data

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GAF 2.0 for Life_stage data Format: The gene association file is a 17 column tab-delimited file, where 11 columns have to have data and 6 are optional.


Mapping of GAF column to gene-life_stage data
Column Content Required? Cardinality Example
1 DB required 1 WB
2 DB Object ID required 1 WBGene00007799
3 DB Object Symbol required 1 nrx-1
4 Qualifier optional 0 or greater (no value, leave empty)
5 Life_stage ID required 1 WBls:00000xx
6 DB:Reference (|DB:Reference) required 1 or greater
(separate values with pipes)
WBPaper00041363|WBPaperXXXXXXXX
7 Evidence code required 1 IDA
8 With (or) From optional 0 or greater
(separate values with pipes)
(no value, leave empty)
9 Aspect required 1 L (for Life_stage ontology, all annotations
have this value)
10 DB Object Name optional 0 or 1 (no value, leave empty)
11 DB Object Synonym (|Synonym) optional 0 or greater (no value, leave empty)
12 DB Object Type required 1 gene (all annotations have this value)
13 Taxon required 1 or 2 taxon:6239
14 Date required 1 not sure about the date
15 Assigned By required 1 WB
16 Annotation Extension optional 0 or greater (no value, leave empty)
17 Gene Product Form ID optional 0 or greater (no value, leave empty)

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