Annotation Conf. Call August 27, 2013: Difference between revisions
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!Extension (Col 16) | !Extension (Col 16) | ||
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|FUS3 | | |FUS3 | P16892 | ||
|GO: | |GO:4707 (MAP kinase activity) | ||
|IDA | |IDA | ||
|PMID: | |PMID:8384702 | ||
| | |has_direct_input: FAR1, requires_regulator:STE7 | ||
|- | |- | ||
|} | |} | ||
Revision as of 18:20, 23 August 2013
Agenda
Mailing lists, SF tracker etc
Val asked me (Rama) to give a refresher on where one should post what messages/questions. The following is what I have so far.
- SourceForge- for ontology term requests, annotation issues (mappings mostly)
- GO Help desk- when you dont know how to get some data, report something is not working (like AmiGO or the website)
- Mailing lists- make announcements, ask annotation related questions (which evidence code etc)
- Seth et al are using github to collect AmiGO2 bugs (https://github.com/kltm/amigo/issues), but if you can't find this URL, feel free to send email to go-help or post a message on go-consortium mailing list
Annotation Extension exercise
- Paper 1: PMID 8384702 (Title: MAP kinase-related FUS3 from S. cerevisiae is activated by STE7 in vitro).
Annotation Extension to be discussed for the MAP kinase activity annotation for FUS3. GO annotations for FUS3- http://www.yeastgenome.org/cgi-bin/GO/goAnnotation.pl?dbid=S000000112
| DB (Col 2) | GO ID (Col 5) | ev.code | Reference (Col 6) | Extension (Col 16) |
|---|---|---|---|---|
| P16892 | GO:4707 (MAP kinase activity) | IDA | PMID:8384702 | has_direct_input: FAR1, requires_regulator:STE7 |
- Paper 2: PMID 10882066 (Title: Cohesin's binding to chromosomes depends on a separate complex consisting of Scc2 and Scc4 proteins.)
Annotation extension to be discussed for the term establishment of protein localization to chromatin (BP) for SCC2 gene. http://www.yeastgenome.org/cgi-bin/GO/goAnnotation.pl?locus=scc2