Annotation Conf. Call 2022-08-16: Difference between revisions
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* Grouped by | * Grouped by | ||
** Is in a Panther family that is one of the 134 enzymes? -> yellow | ** Is in a Panther family that is one of the 134 enzymes? -> yellow | ||
ARUK-UCL | ** made a special '623 enzymes' sheet: https://docs.google.com/spreadsheets/d/1LJTu3sZjwH7u3sD65KXf_e-l3A85cRKpeiYh2DVsRgg/edit#gid=909564179 | ||
AspGD 2 | *** ARUK-UCL 2 | ||
BHF-UCL | *** AspGD 2 | ||
CACAO | *** BHF-UCL 9 | ||
CAFA | *** CACAO 17 | ||
CGD | *** CAFA 2 | ||
dictyBase | *** CGD 5 | ||
FlyBase | *** ComplexPortal 19 | ||
HGNC | *** dictyBase 1 | ||
HGNC-UCL | *** FlyBase 109 | ||
MGI | *** HGNC 3 | ||
PomBase | *** HGNC-UCL 2 | ||
RGD | *** MGI 95 | ||
SGD | *** PomBase 3 | ||
UniProt | *** RGD 9 | ||
WB | *** SGD 49 | ||
ZFIN | *** UniProt 230 | ||
*** WB 42 | |||
*** ZFIN 24 | |||
** Is in a Panther family annotated to dbTF? -> blue | ** Is in a Panther family annotated to dbTF? -> blue | ||
** Is GO annotated to coTF or a descendant -> green | ** Is GO annotated to coTF or a descendant -> green | ||
| Line 131: | Line 133: | ||
== Attendees == | == Attendees == | ||
*On call: Antonia, Deborah, Dmitry, Harold, Kimberly, Leonore | *On call: Antonia, Edith, David, Deborah, Dmitry, Dustin, Harold, Karen, Kimberly, Leonore, Li, Mary, Pascale, Patrick, Raymond, Rob, Seth, Sridhar, Suzi | ||
[[Category:Annotation Working Group]] | [[Category:Annotation Working Group]] | ||
Latest revision as of 12:00, 16 August 2022
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?
AmiGO
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 H2A 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 arginine N-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
- made a special '623 enzymes' sheet: https://docs.google.com/spreadsheets/d/1LJTu3sZjwH7u3sD65KXf_e-l3A85cRKpeiYh2DVsRgg/edit#gid=909564179
- ARUK-UCL 2
- AspGD 2
- BHF-UCL 9
- CACAO 17
- CAFA 2
- CGD 5
- ComplexPortal 19
- dictyBase 1
- FlyBase 109
- HGNC 3
- HGNC-UCL 2
- MGI 95
- PomBase 3
- RGD 9
- SGD 49
- UniProt 230
- WB 42
- ZFIN 24
- 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
GO-CAM and Noctua
Other Projects
Attendees
- On call: Antonia, Edith, David, Deborah, Dmitry, Dustin, Harold, Karen, Kimberly, Leonore, Li, Mary, Pascale, Patrick, Raymond, Rob, Seth, Sridhar, Suzi