Difference between revisions of "Specifications for WB gpi file"
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| 04 || DB_Object_Synonym(s) || optional || 0 or greater || 11 || AMOT_HUMAN|KIAA1071|AMOT || ACE1 || Other_name in ?Gene model | | 04 || DB_Object_Synonym(s) || optional || 0 or greater || 11 || AMOT_HUMAN|KIAA1071|AMOT || ACE1 || Other_name in ?Gene model | ||
|- | |- | ||
− | | 05 || DB_Object_Type || required || 1 || 12 || protein || gene || gene | + | | 05 || DB_Object_Type || required || 1 || 12 || protein || gene || n/a || gene |
|- | |- | ||
− | | 06 || Taxon || required || 1 || 13 || taxon:9606 || taxon:6239 || | + | | 06 || Taxon || required || 1 || 13 || taxon:9606 || taxon:6239 || n/a || taxon:6239 |
|- | |- | ||
| 07 || Parent_Object_ID || optional || 0 or 1 || - || UniProtKB:Q4VCS5 || WB:WBGene00000035 || Gene ID in ?Gene model prefaced with WB: | | 07 || Parent_Object_ID || optional || 0 or 1 || - || UniProtKB:Q4VCS5 || WB:WBGene00000035 || Gene ID in ?Gene model prefaced with WB: |
Revision as of 18:41, 20 March 2013
These specifications are based on the documentation on the GO wiki:
We will need to create a new file with each WormBase release.
column | name | required? | cardinality | GAF column | Example for UniProt | Example for WormBase | Tag in AceDB model | Value for file if not an AceDB tag |
---|---|---|---|---|---|---|---|---|
01 | DB_Object_ID | required | 1 | 2/17 | Q4VCS5-1 | WBGene00000035 | Gene ID in ?Gene model | |
02 | DB_Object_Symbol | required | 1 | 3 | AMOT | ace-1 | CGC_name in ?Gene model; if no CGC_name, then Sequence_name in ?Gene_model | |
03 | DB_Object_Name | optional | 0 or 1 | 10 | Angiomotin | n/a | n/a | |
04 | DB_Object_Synonym(s) | optional | 0 or greater | 11 | KIAA1071|AMOT | ACE1 | Other_name in ?Gene model | |
05 | DB_Object_Type | required | 1 | 12 | protein | gene | n/a | gene |
06 | Taxon | required | 1 | 13 | taxon:9606 | taxon:6239 | n/a | taxon:6239 |
07 | Parent_Object_ID | optional | 0 or 1 | - | UniProtKB:Q4VCS5 | WB:WBGene00000035 | Gene ID in ?Gene model prefaced with WB: | |
08 | DB_Xref(s) | optional | 0 or greater | - | - | UniProtKB:P38433 | ||
09 | Gene_Product_Properties | optional | 0 or greater | - | See Note 4 below |