Ontology meeting 2016-10-27: Difference between revisions
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(If not resolved yet) Stemming from Doug's comment on the recent change: "So it sounds like this is a planned and good loss of annotation. Is an ~80% loss of ec2go-derived annotations similar to what MGI sees? I would think this might be similar for any group using the ec2go file? I guess if the ec dbxrefs were to higher level terms then including annotation to all the children could account for the vast majority of derived annotations. | (If not resolved yet) Stemming from Doug's comment on the recent change: "So it sounds like this is a planned and good loss of annotation. Is an ~80% loss of ec2go-derived annotations similar to what MGI sees? I would think this might be similar for any group using the ec2go file? I guess if the ec dbxrefs were to higher level terms then including annotation to all the children could account for the vast majority of derived annotations. | ||
On a related note, I still did see three "-" containing EC numbers in ec2go: EC:4.2.1.-xref: > GO:scalarane-17alpha-19-diol synthase activity GO:0102643. Is that something that needs cleaning?" | On a related note, I still did see three "-" containing EC numbers in ec2go: EC:4.2.1.-xref: > GO:scalarane-17alpha-19-diol synthase activity GO:0102643. Is that something that needs cleaning?" | ||
===Follow-up: Github Ontology Tracker Update - incomplete=== | |||
See https://github.com/geneontology/go-site/issues/240. | |||
===Follow-up: contacts for UniProt annotations=== | ===Follow-up: contacts for UniProt annotations=== | ||
Revision as of 04:27, 26 October 2016
Attendees:
Minutes:
Regrets: David H
GoToMeeting invite: https://global.gotomeeting.com/join/859015101
Update: proposal on modified protein terms
For background, see http://wiki.geneontology.org/index.php/Ontology_meeting_2016-10-06#Follow-up:_Modified_proteins
FYI, Paola did some edits to the Google doc draft and passed it on to David H, who will look at it next week and prepare some slides for the GOC meeting. Link to the doc: https://docs.google.com/document/d/17U1TD3n_QI9coCycJcOUBDa2nRf3ggPR-tKjDMa_ff8/edit
ec2go mappings
(If not resolved yet) Stemming from Doug's comment on the recent change: "So it sounds like this is a planned and good loss of annotation. Is an ~80% loss of ec2go-derived annotations similar to what MGI sees? I would think this might be similar for any group using the ec2go file? I guess if the ec dbxrefs were to higher level terms then including annotation to all the children could account for the vast majority of derived annotations. On a related note, I still did see three "-" containing EC numbers in ec2go: EC:4.2.1.-xref: > GO:scalarane-17alpha-19-diol synthase activity GO:0102643. Is that something that needs cleaning?"
Follow-up: Github Ontology Tracker Update - incomplete
See https://github.com/geneontology/go-site/issues/240.
Follow-up: contacts for UniProt annotations
As discussed 2 weeks ago - where are we with action items below?
As already mentioned, we should email the GOA helpdesk at goa@ebi.ac.uk for annotations assigned specifically by EBI UniProt (GOA) curators. Where annotations by SIB UniProt curators are or may be involved, please email help@uniprot.org. They distribute updates to all UniProt curators (GOA + SIB). I added this info to the Google spreadsheet (https://docs.google.com/spreadsheets/d/1nAquF0oXHU6d638Q97ZeQ7K7DOhuru84-rOMEL4A114/edit#gid=0), but we opted not to include email contacts on the corresponding GitHub page (https://github.com/geneontology/go-ontology/blob/master/curator_group_contacts.tsv).
Also, [one for David OS?] Chris reminds us to coordinate with Seth on any metadata related to people, see https://github.com/geneontology/go-site/issues/231.
File in GitHub does not include email addresses. *ACTION*: GOA office will have a think about creating a @goa user for GH and get approval from GOA supervisors. *ACTION*: For UniProt - let’s ask Sylvain about the possibility of creating a @uniprot ID on GH that can follow up as contact information. Reminder to coordinate with Seth wrt updating people / users. We can use yaml file to find IDs.
GitHub projects
See background here: http://wiki.geneontology.org/index.php/Ontology_meeting_2016-10-06#GitHub_Projects
Plan is to look at https://github.com/geneontology/go-ontology/projects/1 and see how this works for us. Feel free to add there.