Annotation Conf. Call April 23, 2013: Difference between revisions
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* Misused terms (http://gocwiki.geneontology.org/index.php/Misused_terms - we will be going through them in future annotation calls) | * Misused terms (http://gocwiki.geneontology.org/index.php/Misused_terms - we will be going through them in future annotation calls) | ||
* discussion on read-out vs actual involvement in the process | * discussion on read-out vs actual involvement in the process | ||
* Create Orcid account http://orcid.org/ (for Termgenie login) and send your username to Jane | * Create Orcid account http://orcid.org/ (for Termgenie login) and send your username to Jane. This will be used for Xref (not for logging into TermGenie) | ||
* Cell cycle changes | * Cell cycle changes | ||
Revision as of 11:55, 23 April 2013
- Apoptosis curation manual and re-curation effort
- Jenkins checks
- Update on GOC meeting
Agenda
Apoptosis curation
Curation manual can be found here: http://wiki.geneontology.org/index.php/Apoptosis_Curation_Manual
Discussion
- If you have questions about any of the new terms, please post them on SourceForge.
- Davids question about a paper (Pablo, Paola please add this example to the manual)
- Karen- it will be useful to add some of the common apoptotic drug targets. Pablo will provide a link to a good review in the manual.
- David- although we shouldn't be annotating to the top level terms, it is okay to annotate to the broad terms if that is the best you can do.
- Li- differentiate between hormone induced apoptosis and extrinsic apoptotic signaling pathway in the absence of ligand
- Pablo will add his comments to the manual
- Li- cell type specific apoptosis- should we create a new term or use col-16?
- paola- precompose a new term. if the cell type is not in the cell type ontology, then the ontology editors will work with cell type folks to add it.
Jenkins
GOC meeting
- Minutes are available on Google docs (link available from the GOC wiki- http://gocwiki.geneontology.org/index.php/2013_Cambridge_GOC_Meeting_Agenda).
- AmiGO 2 (http://amigo2.berkeleybop.org/cgi-bin/amigo2/amigo) is ready for testing. Please report your bugs at: http://github.com/kltm/amigo/issues or send them to Seth/Chris
- New website is being worked on (check the new logo). http://beta.geneontology.org
- Galaxy environment has been set up (http://galaxy.berkeleybop.org/). It will be integrated with the new website.
- Annotation extension column (propagating/inferring)
- Misused terms (http://gocwiki.geneontology.org/index.php/Misused_terms - we will be going through them in future annotation calls)
- discussion on read-out vs actual involvement in the process
- Create Orcid account http://orcid.org/ (for Termgenie login) and send your username to Jane. This will be used for Xref (not for logging into TermGenie)
- Cell cycle changes