Difference between revisions of "Model changes to capture and consolidate human disease data"

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Line 2: Line 2:
  
 
  ?Gene
 
  ?Gene
  Human_disease_info  OMIM_ortholog  ?Database ?Database_field  ?Accession_number 
+
  DB_info      Database                ?Database ?Database_field Text
  Potential_model_for ?DO_term XREF Gene #Evidence
+
  Disease_info Experimental_model_for ?DO_term XREF Gene #Evidence          
Experimental_model_for ?DO_term XREF Gene #Evidence
+
              Potential_model_for ?DO_term XREF Gene #Evidence
Human_disease_relevance ?Text #Evidence //moved from ‘structured description’ tag
+
              Disease_relevance ?Text #Evidence //moved from ‘structured description’ tag, note name change from 'Human_disease_relevance' to 'Disease_relevance'
  
  
Line 18: Line 18:
 
  Comment            Text
 
  Comment            Text
 
  Synonymn          ?Text Scope_modifier UNIQUE Broad
 
  Synonymn          ?Text Scope_modifier UNIQUE Broad
 +
                                                Exact
 +
                                                Narrow
 +
                                                Related
 
  Relationships      is_a
 
  Relationships      is_a
  DB_info    Database  ?Database  ?Database_field  ?Accession_number  Text               
+
  DB_info    Database  ?Database  ?Database_field  Text               
 
  Replaced_by        ?DO_term
 
  Replaced_by        ?DO_term
 
  Subset            Text                   
 
  Subset            Text                   
Line 27: Line 30:
 
                     ?Phenotype  XREF  DO_term
 
                     ?Phenotype  XREF  DO_term
 
                     ?WBProcess  XREF  DO_term
 
                     ?WBProcess  XREF  DO_term
  Index  Ancestor  ?GO_term     //Consider transitivity, needed for web display?
+
  Index  Ancestor  ?DO_term     //Consider transitivity, needed for web display?
         Descendent ?GO_term     //Consider transitivity, needed for web display?
+
         Descendent ?DO_term     //Consider transitivity, needed for web display?
 
  Version UNIQUE Text            //revision number
 
  Version UNIQUE Text            //revision number

Revision as of 18:34, 26 November 2012

A new tag ‘Human_disease_info’ proposed to consolidate disease-related data in WormBase:

?Gene
DB_info       Database                 ?Database ?Database_field Text
Disease_info  Experimental_model_for	?DO_term  XREF	Gene	#Evidence            
              Potential_model_for	?DO_term  XREF	Gene	#Evidence
              Disease_relevance	?Text	#Evidence //moved from ‘structured description’ tag, note name change from 'Human_disease_relevance' to 'Disease_relevance'


Model for Disease Ontology Term:

?DO_term 
Name  ?Text
Status UNIQUE      Valid
                   Obsolete
Alternate_id       ?Text
Definition         ?Text
Comment            Text
Synonymn           ?Text Scope_modifier UNIQUE Broad
                                               Exact
                                               Narrow
                                               Related
Relationships      is_a
DB_info    Database  ?Database  ?Database_field   Text              
Replaced_by        ?DO_term
Subset             Text                  
Created_by         Text
Creation_date      Text             
Attribute_of       ?Gene       XREF   DO_term 
                   ?Phenotype  XREF   DO_term
                   ?WBProcess  XREF   DO_term
Index   Ancestor   ?DO_term      //Consider transitivity, needed for web display?
        Descendent ?DO_term      //Consider transitivity, needed for web display?
Version UNIQUE Text            //revision number