Difference between revisions of "Specifications for WB gpi file"
From WormBaseWiki
Jump to navigationJump to search| Line 24: | Line 24: | ||
| 03 || DB_Object_Name || optional || 0 or 1 || 10 || Angiomotin || n/a || n/a | | 03 || DB_Object_Name || optional || 0 or 1 || 10 || Angiomotin || n/a || n/a | ||
|- | |- | ||
| − | | 04 || DB_Object_Synonym(s) || optional || 0 or greater || 11 || AMOT_HUMAN|KIAA1071|AMOT || ACE1 | + | | 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 | | 05 || DB_Object_Type || required || 1 || 12 || protein || gene | ||
Revision as of 18:37, 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 |
|---|---|---|---|---|---|---|---|
| 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 | |
| 06 | Taxon | required | 1 | 13 | taxon:9606 | taxon:6239 | |
| 07 | Parent_Object_ID | optional | 0 or 1 | - | UniProtKB:Q4VCS5 | WB:WBGene00000035 | |
| 08 | DB_Xref(s) | optional | 0 or greater | - | - | UniProtKB:P38433 | |
| 09 | Gene_Product_Properties | optional | 0 or greater | - | See Note 4 below |
