search

geneontology / go-annotation

This repository hosts the tracker for issues pertaining to GO annotations.
BSD 3-Clause "New" or "Revised" License
31 stars 10 forks source link

Review annotations to children and regulation terms of (subtype) chitin metabolic process #5277

Open raymond91125 opened 1 month ago

raymond91125 commented 1 month ago

Dear all,

The proposal has been made to obsolete GO:0006037 cell wall chitin metabolic process GO:0006034 cuticle chitin metabolic process GO:0006035 cuticle chitin biosynthetic process GO:0006036 cuticle chitin catabolic process GO:0034217 ascospore wall chitin biosynthetic process GO:0034218 ascospore wall chitin metabolic process GO:0006038 cell wall chitin biosynthetic process GO:0006039 cell wall chitin catabolic process GO:0034221 fungal-type cell wall chitin biosynthetic process GO:0034222 regulation of cell wall chitin metabolic process GO:0034232 ascospore wall chitin catabolic process GO:0034223 regulation of ascospore wall chitin biosynthetic process GO:0034233 regulation of cell wall chitin catabolic process GO:0034234 regulation of ascospore wall chitin catabolic process GO:0032884 regulation of cell wall chitin biosynthetic process

see https://github.com/geneontology/go-ontology/issues/27960.

The obsoleted terms will be merged to respective parent terms.

Experimental annotations that need to be reviewed are here: https://docs.google.com/spreadsheets/d/1hywV4yvou3T8huLC8J60IzH8l8xHk2T-hQ8KzR81q5Q/edit?gid=0#gid=0

Impacted groups: FlyBase 9 (automatic transfer) SGD 19 (automatic transfer) AspGD 2 (automatic transfer) CGD 15 UniProt 8 (automatic transfer) ~PomBase 3~ DONE ComplexPortal 1

** Group contacts: https://github.com/geneontology/go-site/blob/master/metadata/group-contacts.csv

Mappings that need to be reviewed: (InterPro2GO, UniProt-Keywords, UniRule) None

Thanks.

ValWood commented 1 month ago

Note that for the automatic transfer, there is a loss of information because these genes will no longer be annotated to the old parent "ascospore wall biogenesis" etc

pgaudet commented 1 month ago

Right, adding an annotation to the proper BP would be very useful

@rozaru @srengel @Antonialock

rozaru commented 2 days ago

I checked and updated the annotation for the FlyBase entries affected. I wasn't sure where these two entities comes from in the spreadsheet: FBgn0004610 NaDh FBgn0004609 NaDg They are not in FlyBase and they seem to correspond to: FBgn0041630 Hexo1 FBgn0041629 Hexo2