2 April 2019 PAINT Conference Call: Difference between revisions
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Status update on these? | Status update on these? | ||
===Duplicate annotation problem is back=== | |||
https://github.com/geneontology/go-annotation/issues/2247 | https://github.com/geneontology/go-annotation/issues/2247 | ||
PTN000163972 | PTN000163972 | ||
===Are we loosing NOT annotations in updates ?=== | |||
See comments in PTHR16517 (and when I opened the family on March 19, there were NO NOT annotations) | |||
== | ===Reporting families building issues=== | ||
Where can we track requests such as the one here: https://github.com/geneontology/go-annotation/issues/1952 | |||
==Curation priorities== | ==Curation priorities== | ||
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==Example tickets== | ==Example tickets== | ||
Revision as of 08:21, 21 March 2019
Present
Discussion points
PANTHER/PAINT Pipeline issues
- There are still 4 open tickets in the PAINT pipeline project:
https://github.com/orgs/geneontology/projects/23 Status update on these?
Duplicate annotation problem is back
https://github.com/geneontology/go-annotation/issues/2247 PTN000163972
Are we loosing NOT annotations in updates ?
See comments in PTHR16517 (and when I opened the family on March 19, there were NO NOT annotations)
Reporting families building issues
Where can we track requests such as the one here: https://github.com/geneontology/go-annotation/issues/1952
Curation priorities
New families and fixing GitHub tickets (40 open as of Feb 27) - UPDATE:
Tool feature requests
- Undo
- Links to AmiGO for all genes
Tree issues ?
PTHR10791: https://github.com/geneontology/go-annotation/issues/2210 Pascale - saw may cases where sequences from yeast and other distantly related organism seem to be misplaced- ie duplications should be calculated to be older.
Example tickets
Specificity of transporters
First issue: Questionable dispute
- https://github.com/geneontology/go-annotation/issues/2209
- Val points out that transporter substrate may evolve rapidly; we need to be careful when we annotate.
- In this case the annotation was propagated to only a small node; what do people think about this propagation?
Second issue: questionable tree annotation
- Review annotations to this family: PTHR43341
- why did the curator NOT propagate 'amino acid transporter activity' ?
- Weird propagation in a small pombe duplication node
- No membrane annotation
- Hardly any BP propagated
- Could this be due to some automatic update ?