pgaudet

Catalytic activity terms with no cross references

16

Hi @raymond91125 For the EC-RHEA-GO alignment project, we have a list of terms with no cross references at all (see https://docs.google.com/spreadsheets/d/1ytuqiOii6IYvMgy2rqRiy6JDCXIyucLcqcy5vFTO3bk/edit?gid=1732970901#gid=1732970901) We would like to have cross references as much...

Fix EC to one-to-one-xrefs-by-value-violation

9

See PR here: https://github.com/geneontology/go-ontology/pull/26235 I made a spreadsheet here: https://docs.google.com/spreadsheets/d/17QvDQoIXe-Rim9ReReVlZGntr-WkIGJ0cbPhaQDB_As/edit#gid=0

I have made a spreadsheet of GO terms with no RHEA and an EC mapping: https://docs.google.com/spreadsheets/d/1eCAJAzCrdBKvEYVwW2sZw2LfNpqP8qN6eUYeIkR0m_I/edit#gid=38278204 It should be 'easy' to find RHEA cross references for terms with a single...

We dont want to link to UM-BBD enzymes, as these do not represent function. UM-BBD 'reactions' are the UM-BBD object type GO should link to. There are 86 terms that...

Obsoletion request: Some reductase activities

2

These terms were not obsoleted in this ticket https://github.com/geneontology/go-ontology/issues/28261 because they had annotations. We need to check if the activities should exist or should be merged/obsoleted. - [ ] GO:0004028...

Obsoletion request: GO:0080002 UDP-glucose:4-aminobenzoate acylglucosyltransferase activity

6

Dear alll, The proposal has been made to obsolete GO:0080002 UDP-glucose:4-aminobenzoate acylglucosyltransferase activity with consider: GO:0033836 flavonol 7-O-beta-glucosyltransferase activity. There are 3 EXP annotations by TAIR to this term, see...

Hello, I think GO:0033331 ent-kaurene metabolic process & GO:0010241 ent-kaurene oxidation to kaurenoic acid represent the same concept/pathway as GO:0033332 ent-kaurene biosynthetic process @tberardini is this right? Thanks, Pascale

Create new subset for catalytic activities that don't have db cross references

6

We want the GO catalytic activities to align with RHEA and EC as much as possuble, but in some cases GO terms have no mapping in either RHEA, EC, or...

Difference between 'GO:0030968 endoplasmic reticulum unfolded protein response' and 'GO:0006984 ER-nucleus signaling pathway' ?

1

Hi @ValWood @sylvainpoux @vanaukenk Do you know what is the difference between 'GO:0030968 endoplasmic reticulum unfolded protein response' and 'GO:0006984 ER-nucleus signaling pathway'? They have very overlapping children: Do we...

- [ ] - GO:0071588 hydrogen peroxide mediated signaling pathway - & children (2 FB (removed); 2 UniProt, 2 TAIR) - [x] - GO:1901528 hydrogen peroxide mediated signaling pathway involved...