Difference between revisions of "Evidence Code Ontology"

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= Other models affected for WS278 =
 
= Other models affected for WS278 =
* Will replace ?GO_code with ?ECO_code in:
+
* Will replace ?GO_code with ?ECO_term in:
 
** ?GO_annotation
 
** ?GO_annotation
 
** ?Phenotype
 
** ?Phenotype
 
* Will remove ?GO_code in:
 
* Will remove ?GO_code in:
** ?Cell  
+
** ?Cell
  
 
= Other models affected in future releases =
 
= Other models affected in future releases =

Revision as of 13:02, 22 April 2020

Overview

  • The Evidence and Conclusion Ontology will be incorporated into a future release of WormBase, aiming for WS278, and is proposed to eventually fully replace ?GO_code.

?ECO_term Model

 ?ECO_term Name UNIQUE ?Text
          Status UNIQUE Valid
                        Obsolete
          Alt_id ?Text
          Definition UNIQUE ?Text
          Synonym Broad ?Text
                  Exact ?Text
                  Narrow ?Text
                  Related ?Text
          Child Instance ?ECO_term XREF Instance_of
          Parent Instance_of ?ECO_term XREF Instance
          Attribute_of GO_annotation ?GO_annotation XREF ?ECO_code
          Index Ancestor ?ECO_term XREF Descendant
                Descendant ?ECO_term XREF Ancestor
          Version UNIQUE Text

Other models affected for WS278

  • Will replace ?GO_code with ?ECO_term in:
    • ?GO_annotation
    • ?Phenotype
  • Will remove ?GO_code in:
    • ?Cell

Other models affected in future releases

  1. ?Disease_model_annotation (will eventually replace ?GO_code with ?ECO_code)

Additional model cleanup? Are these tags being used at all?

  1. ?Gene - remove ?GO_term tag and associated info?
  2. ?Sequence - remove ?GO_term tag and associated info?
  3. ?CDS - remove ?GO_term tag and associated info?
  4. ?Transcript - remove ?GO_term tag and associated info?


Parsing Script for ?ECO_term Model

TO BE ADDED