16 December 2014 PAINT Conference Call

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December 16th, 2014 PAINT call minutes Participants:

Agenda

NOT annotation in PAINT

Huaiyu brought this up two meetings ago. In this meeting, he will show the family PTHR10024 (please have join.me ready) and three different scenarios of NOT annotations in PAINT.

  • The NOT is only applied to the term, but not to its parent terms.
  • The NOT is applied to the term and all its parent terms.
  • The NOT is applied to the term and some of its parent terms.

Are taxon constraints functioning properly in PAINT (Karen)

David Hill brought this to my attention. The mouse Capzb gene is getting an IBA annotation to the term 'actin cortical patch' via PAINT, despite the fact that David says that "According to the ontology 'actin cortical patch' is restricted to fungi."

The Panther family is PTHR10619. It was committed a month ago on Nov 5th.

Feature requests

NOT & IRD (Pascale) NOT Are not allowed when there is a positive annotation in a clade (as far as I can tell). Can this be changed, at least for use with the IRD code  ?

Show PAINTed parent terms in the matrix (Huaiyu) By default, only the most specific terms are listed in the matrix. When a parent term is propagated, it is now visible in the matrix, but the term is listed in the Annotation window. This is a bit confusing. My suggestion is that all PAINTed terms should be shown in the matrix window.

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