Difference between revisions of "OA for disease term"
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====DO term model==== | ====DO term model==== | ||
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+ | ?DO_term | ||
+ | Name UNIQUE ?Text | ||
+ | Status UNIQUE Valid | ||
+ | Obsolete | ||
+ | Alternate_id ?Text | ||
+ | Definition UNIQUE ?Text | ||
+ | Worm_disease_model ?Text ?Species #Evidence //added Jan 2014, for WS242 | ||
+ | Comment Text | ||
+ | Synonymn Broad ?Text | ||
+ | Exact ?Text | ||
+ | Narrow ?Text | ||
+ | Related ?Text | ||
+ | Parent Is_a ?DO_term XREF Is | ||
+ | Child Is ?DO_term XREF Is_a | ||
+ | DB_info Database ?Database ?Database_field Text | ||
+ | Type GOLD | ||
+ | Gram_negative_bacterial_infectious_disease | ||
+ | Gram_positive_bacterial_infectious_disease | ||
+ | Sexually_transmitted_infectious_disease | ||
+ | Tick_borne_infectious_disease | ||
+ | Zoonotic_infectious_disease | ||
+ | Attribute_of Gene_by_biology ?Gene XREF Experimental_model | ||
+ | Gene_by_orthology ?Gene XREF Potential_model | ||
+ | Phenotype ?Phenotype XREF DO_term | ||
+ | WBProcess ?WBProcess XREF DO_term | ||
+ | Reference ?Paper XREF DO_term | ||
+ | Version UNIQUE Text | ||
+ | </pre> | ||
====Fields for the Disease Term OA==== | ====Fields for the Disease Term OA==== |
Revision as of 18:01, 27 February 2014
In cases where there is no elegans gene to attach disease data (eg., Huntington's disease), data will be attached to the DO-term.
DO term model
?DO_term Name UNIQUE ?Text Status UNIQUE Valid Obsolete Alternate_id ?Text Definition UNIQUE ?Text Worm_disease_model ?Text ?Species #Evidence //added Jan 2014, for WS242 Comment Text Synonymn Broad ?Text Exact ?Text Narrow ?Text Related ?Text Parent Is_a ?DO_term XREF Is Child Is ?DO_term XREF Is_a DB_info Database ?Database ?Database_field Text Type GOLD Gram_negative_bacterial_infectious_disease Gram_positive_bacterial_infectious_disease Sexually_transmitted_infectious_disease Tick_borne_infectious_disease Zoonotic_infectious_disease Attribute_of Gene_by_biology ?Gene XREF Experimental_model Gene_by_orthology ?Gene XREF Potential_model Phenotype ?Phenotype XREF DO_term WBProcess ?WBProcess XREF DO_term Reference ?Paper XREF DO_term Version UNIQUE Text
Fields for the Disease Term OA
Order | Name | Type | Required? | Equivalent acedb tag | Example |
---|---|---|---|---|---|
1 | DO term | Autocomplete obo | 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 | GO ID | required | 1 | DOID:0060041 | |
6 | DB:Reference (|DB:Reference) | required | 1 or greater (separate values with pipes) |
WBPaper00041363|WBPaperXXXXXXXX | |
7 | Evidence code | required | 1 | IMP or ISS (use 'IMP' for Experimental_model genes and ISS for Potential_model genes) | |
8 | With (or) From | optional | 0 or greater (separate values with pipes) |
OMIM:600565|OMIM:600566 | |
9 | Aspect | required | 1 | D (D for disease 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 | 20130422 (this is the date of annotation dumped under Date_last_updated; for potential_model genes, use the date on which the OMIM homology script is run) | |
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) |