Annotation Conf. Call 2022-08-16

Agenda and Minutes

Meetings and Announcements

Fall 2022 Consortium Meeting

• In person with remote accommodation
• At Caltech, Pasadena, CA, Tuesday, October 11th - Thursday, October 13th
• Registration form
  • See agenda for pswd
• Please think about agenda items and breakout group topics

Noctua

• Next regularly scheduled Noctua outage:
  • Thursday, September 8th

GO Release Pipeline

• August release still pending?

Ontology

Histone modifications

Added many MFs for histone modifications -

• histone acetyltransferase activity
  • 'histone H2A acetyltransferase activity'
    • 'histone H2AK5 acetyltransferase activity'
    • 'histone H2AK9 acetyltransferase activity'
  • 'histone H2B acetyltransferase activity'
    • 'histone H2BK12 acetyltransferase activity'
    • 'histone H2BK5 acetyltransferase activity'
  • 'histone H3 acetyltransferase activity'
    • 'histone H3K14 acetyltransferase activity'
    • 'histone H3K18 acetyltransferase activity'
    • 'histone H3K23 acetyltransferase activity'
    • 'histone H3K27 acetyltransferase activity'
    • 'histone H3K36 acetyltransferase activity'
    • 'histone H3K4 acetyltransferase activity'
    • 'histone H3K56 acetyltransferase activity'
    • 'histone H3K72 acetyltransferase activity'
    • 'histone H3K9 acetyltransferase activity'
  • 'histone H4 acetyltransferase activity'

• histone methyltransferase activity
  • 'histone arginine N-methyltransferase activity'
    • 'histone H2AR3 methyltransferase activity'
    • 'histone H3R17 methyltransferase activity'
    • 'histone H3R2 methyltransferase activity'
    • 'histone H3R8 methyltransferase activity'
    • 'histone H4R3 methyltransferase activity'
  • 'histone glutamine N-methyltransferase activity'
  • 'histone lysine N-methyltransferase activity'
    • 'histone H3K27 methyltransferase activity'
    • 'histone H3K36 methyltransferase activity'
    • 'histone H3K37 methyltransferase activity'
    • 'histone H3K4 methyltransferase activity'
    • 'histone H3K56 methyltransferase activity'
    • 'histone H3K79 methyltransferase activity'
    • 'histone H3K9 methyltransferase activity'
    • 'histone H4K20 methyltransferase activity'

• histone kinase activity (this branch needs to be changed to be organized by histone, not by modified residue)
  • 'histone arginine kinase activity'
  • 'histone serine kinase activity'
    • 'histone H2AS1 kinase activity'
    • 'histone H2AS121 kinase activity'
    • 'histone H2AS139 kinase activity'
    • 'histone H2BS14 kinase activity'
    • 'histone H2BS36 kinase activity'
    • 'histone H3S10 kinase activity'
    • 'histone H3S28 kinase activity'
    • 'histone H3S57 kinase activity'
    • 'histone H4S1 kinase activity'
    • 'histone threonine kinase activity'
    • 'histone H2AT120 kinase activity'
    • 'histone H3T11 kinase activity'
    • 'histone H3T3 kinase activity'
    • 'histone H3T45 kinase activity'
    • 'histone H3T6 kinase activity'
    • 'histone tyrosine kinase activity'
    • 'histone H2AY142 kinase activity'
    • 'histone H3Y41 kinase activity'

• 'histone deacetylase activity'
• 'histone demethylase activity'
• 'histone phosphatase activity'
• 'histone decrotonylase activity'

• 'histone ubiquitin ligase activity'
• 'histone lactyltransferase activity'

etc. etc.

Annotation

Review of histone modification annotations

• Annotation review spreadsheet: https://docs.google.com/spreadsheets/d/1LJTu3sZjwH7u3sD65KXf_e-l3A85cRKpeiYh2DVsRgg/edit#gid=1052081963
• Grouped by
  • Is in a Panther family that is one of the 134 enzymes? -> yellow

ARUK-UCL 18 AspGD 2 BHF-UCL 2 CACAO 9 CAFA 17 CGD 2 dictyBase 5 FlyBase 1 HGNC 109 HGNC-UCL 3 MGI 2 PomBase 95 RGD 3 SGD 9 UniProt 49 WB 230 ZFIN 42

• • Is in a Panther family annotated to dbTF? -> blue
  • Is GO annotated to coTF or a descendant -> green
  • Is GO annotated to GTF or a descendant -> orange
  • In more than one category -> purple

Annotation error reports and annotation review

• Please remember to keep checking the reports generated by the pipeline and address any errors
• Also check annotation review tickets assigned to you/your group in go-annotation repo on github
• Questions about either - please bring to the meeting

Attendees

• On call: