3 Aug 2021 PAINT Conference Call
Present
Agenda
Taxon constraint family review
The validation program removed certain IBDs due to TCV. Each of us was assigned to review a few of these families (Huaiyu's email on June 7th, 2021).
Huaiyu's review - The IBD removals due to TCV seem to be correct in the cases reviewed. However, most of TCs should have "only_in" relations to the ancestors, meaning they would gain the function in a more recent species. Therefore, there should be a mechanism in the PAINT tool to check it. For example, in PTHR10161, the GO term "ossification (GO:0001503)" was annotated to PTN000017834 (Deuterostomia) with IBD. It is correct to remove it. However, the terms should be correct to a child node of Euteleostomi. We have many cases like this.
A file has been generated for each book in http://data.pantherdb.org/Paint/taxon_check/ with possible node that can be annotated for given term with IBD code.
PAINT software updates
Disabled functionality that prevents creation of IBD and TCV annotations due to taxonomy violation
Added functionality via drop down menu to view taxonomy violations for existing annotations in book
Future update - Upgrade Java version to 11