Difference between revisions of "OA for disease term"

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|5 || Worm model description || Big text box ||'''required''' ||  ||
 
|5 || Worm model description || Big text box ||'''required''' ||  ||
 
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|6 ||DB:Reference (<nowiki>|</nowiki>DB:Reference)||'''required'''||1 or greater<br/> (separate values with pipes)||WBPaper00041363<nowiki>|</nowiki>WBPaperXXXXXXXX
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|6 || Paper || Autocomplete obo, <br/>multivalue || '''required'''|| ||WBPaper00041363||
 
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|7 ||Evidence code||'''required'''||1|| IMP or ISS (use 'IMP' for Experimental_model <br/>genes and ISS for Potential_model genes)
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|7 || Date || Autocompleted for new annotation<br/> editable for old ||'''required'''||   ||  
 
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|8 ||With (or) From||''optional''||0 or greater<br/> (separate values with pipes)||OMIM:600565<nowiki>|</nowiki>OMIM:600566
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|8 || Comment || Free text || ''optional''|| ||
 
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|9 || Aspect|| '''required'''||1||D (D for disease ontology, all annotations<br/> have this value)
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|9 || PGID || Script populates || n/a ||  ||
 
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|10||DB Object Name||''optional''||0 or 1||(no value, leave empty)
 
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|11||DB Object Synonym (<nowiki>|</nowiki>Synonym)||''optional''||0 or greater||(no value, leave empty)
 
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|12||DB Object Type||'''required'''||1||gene (all annotations have this value)
 
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|13||Taxon||'''required'''||1 or 2||taxon:6239
 
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|14||Date||required||1||20130422 (this is the date of annotation dumped under Date_last_updated;<br/>for potential_model genes, use the date on which the OMIM homology script is run)
 
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|15|| Assigned By||'''required'''||1||WB
 
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|16||Annotation Extension||''optional''||0 or greater||(no value, leave empty)
 
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|17||Gene Product Form ID||''optional''||0 or greater||(no value, leave empty)
 
 
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Revision as of 18:18, 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

Field descriptions for Disease Term OA
Order Name Type Required? Equivalent acedb tag Example
1 DO term Autocomplete obo required
2 Curator Autocomplete dropdown required
3 Curator Hisotory script populates n/a
4 Species Autocomplete dropdown required
5 Worm model description Big text box required
6 Paper Autocomplete obo,
multivalue		 required WBPaper00041363
7 Date Autocompleted for new annotation
editable for old		 required
8 Comment Free text optional
9 PGID Script populates n/a
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