#4 finding IEA annotations that are suspect

open
nobody
None
5
2009-03-13
2009-03-13
Doug Howe
No

If a single gene product is simultaneously annotated with an IEA annotation from one of the translation files (interpro2go, ec2go, spkw2go) AND an experimentally supported NOT annotation to that same term or one of it's is_a or part_of parents, I believe this is a case where the translation file or underlying domain model for the thing being translated needs to be adjusted. The experimental data says the gene does NOT do X but the IEA annotation says it does do X...the translation is dubious in this case. It would be good to be able to easily locate such cases to facilitate cleanup of the various domains and translation files as needed.

Discussion

  • Doug Howe
    Doug Howe
    2009-03-13

    ps...this could be added as a pre-canned query to GOOSE perhaps?

     
  • Doug Howe
    Doug Howe
    2013-02-12

    Someone spammed this case, which caused me to come here with a new thought. Thanks!

    If the IEA annotation is based on protein level annotation, and that is then brought into a MOD that annotates at the gene level, it is possible that both the positive and the NOT assertion are true due to differences in the behavior of splice variants.

     
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