April 2015 GOC Teleconference Agenda and Logistics: Difference between revisions
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* Call-in information / screen sharing: We will use Bluejeans teleconferencing software for audio and video and WILL NOT use the GO conference line. We will use Bluejeans for screen sharing also. If attendees have a question they should post it on the chat window and they will answered in order. | * Call-in information / screen sharing: We will use Bluejeans teleconferencing software for audio and video and WILL NOT use the GO conference line. We will use Bluejeans for screen sharing also. If attendees have a question they should post it on the chat window and they will answered in order. | ||
** Link for the Bluejeans meeting: https://bluejeans.com/626682538 | ** Link for the Bluejeans meeting: https://bluejeans.com/626682538 | ||
* Minutes available on [https://docs.google.com/document/d/1ji04ZKPxRT9Do-PR52tAnD9pR_lMnP5FaRtYXpqvhaU/edit?usp=sharing Google Document here]. | |||
==Agenda== | ==Agenda== | ||
===Introduction (11:00 - 11:05) (GO PI's)=== | ===Introduction (11:00 - 11:05) (GO PI's)=== | ||
===Discussion of priorities for calendar year 2015 (11:05 - 11:30) (GO PI's)=== | ===Discussion of priorities for calendar year 2015 (11:05 - 11:30) (GO PI's)=== | ||
* Common Annotation Framework/Environment (CAF/E) | |||
** Goal: LEGO annotation and text mining support in production (CAF/E) | |||
** Milestone 1: version of each component that can be used by curation test team | |||
** Milestone 2: Integration of components into Common Annotation Framework/Environment | |||
** Preliminary results on javascript PAINT as part of CAF/E | |||
* Phylogenetic annotation | |||
** meet production goals: annotate 1/3 of genes this grant year | |||
** software for updating annotations to reflect changes in gene sets, experimental annotations and ontology | |||
* Metrics for value/impact of GO data | |||
** Categorize and quantify usage of GO in published papers | |||
** Annotation quality metric and assessment | |||
* Monitoring and assessing our support for users | |||
** User survey | |||
** Website usability study | |||
** Enrichment Analysis: Documentation, UI improvement | |||
===Talk by Paul Pavlidis, UBC (11:30 - 12: | ===Talk by Paul Pavlidis, UBC (11:30 - 12:15)=== | ||
====The use of GO in data analysis: can we raise the bar?==== | ====The use of GO in data analysis: can we raise the bar?==== | ||
* [http://pavlab.chibi.ubc.ca Paul Pavlidis's lab website] | * [http://pavlab.chibi.ubc.ca Paul Pavlidis's lab website] | ||
===Other agenda items (12: | ===Other agenda items (12:15 - 12:30)=== | ||
* Update on AmiGO/GO website Behave testing framework (Mary/Seth/Chris) | * Update on AmiGO/GO website Behave testing framework (Mary/Seth/Chris) | ||
* | ** Mary slides [[File:AutomatedTestingAmiGO2.pdf]] | ||
* | * Upcoming Consortium meeting in Washington DC | ||
==Attendees== | ==Attendees== | ||
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|- | |- | ||
|David Hill | |David Hill | ||
|Jackson | |The Jackson Laboratory, MGI | ||
|- | |- | ||
|Kimberly | |Harold Drabkin | ||
|The Jackson Laboratory, MGI | |||
|- | |||
|Judy Blake | |||
|The Jackson Laboratory | |||
|- | |||
|Mary Dolan | |||
|The Jackson Laboratory, MGI | |||
|- | |||
| Li Ni | |||
| The Jackson Laboratory, MGI | |||
|- | |||
| Dmitry Sitnikov | |||
| The Jackson Laboratory, MGI | |||
|- | |||
| Karen Christie | |||
| The Jackson Laboratory, MGI | |||
|- | |||
|Kimberly Van Auken | |||
|Cal Tech, Wormbase | |Cal Tech, Wormbase | ||
|- | |- | ||
Line 56: | Line 90: | ||
|- | |- | ||
| Eva Huala | | Eva Huala | ||
| Phoenix Bioinformatics, TAIR | |||
|- | |||
|Donghui Li | |||
| Phoenix Bioinformatics, TAIR | | Phoenix Bioinformatics, TAIR | ||
|- | |- | ||
Line 67: | Line 104: | ||
| GOC / neXtProt | | GOC / neXtProt | ||
|- | |- | ||
|} | | Marc Feuermann | ||
| Swiss-Prot | |||
|- | |||
| Birgit Meldal | |||
| IntAct / Complex Portal | |||
|- | |||
| Aleks Shypitsyna | |||
| UniProt-GOA, EMBL-EBI | |||
|- | |||
| Penelope Garmiri | |||
| UniProt-GOA, EMBL-EBI | |||
|- | |||
| Rebecca Foulger | |||
| UCL | |||
|- | |||
| Ruth Lovering | |||
| UCL | |||
|- | |||
| Rachael Huntley | |||
| UCL | |||
|- | |||
| Tom Hayman | |||
| RGD | |||
|- | |||
| Mary Shimoyama | |||
| RGD | |||
|- | |||
|Shur-Jen Wang | |||
|RGD | |||
|- | |||
|Stan Laulederkind | |||
|RGD | |||
|- | |||
| Helen Attrill | |||
| FlyBase | |||
|- | |||
| Midori Harris | |||
| PomBase | |||
|- | |||
| Val Wood | |||
| PomBase | |||
|- | |||
| Paola Roncaglia | |||
| EMBL-EBI | |||
|-} |
Latest revision as of 15:28, 15 April 2015
Logistics
- Call runs April 1, from 11am to 12:30pm EDT
- Call-in information / screen sharing: We will use Bluejeans teleconferencing software for audio and video and WILL NOT use the GO conference line. We will use Bluejeans for screen sharing also. If attendees have a question they should post it on the chat window and they will answered in order.
- Link for the Bluejeans meeting: https://bluejeans.com/626682538
- Minutes available on Google Document here.
Agenda
Introduction (11:00 - 11:05) (GO PI's)
Discussion of priorities for calendar year 2015 (11:05 - 11:30) (GO PI's)
- Common Annotation Framework/Environment (CAF/E)
- Goal: LEGO annotation and text mining support in production (CAF/E)
- Milestone 1: version of each component that can be used by curation test team
- Milestone 2: Integration of components into Common Annotation Framework/Environment
- Preliminary results on javascript PAINT as part of CAF/E
- Phylogenetic annotation
- meet production goals: annotate 1/3 of genes this grant year
- software for updating annotations to reflect changes in gene sets, experimental annotations and ontology
- Metrics for value/impact of GO data
- Categorize and quantify usage of GO in published papers
- Annotation quality metric and assessment
- Monitoring and assessing our support for users
- User survey
- Website usability study
- Enrichment Analysis: Documentation, UI improvement
Talk by Paul Pavlidis, UBC (11:30 - 12:15)
The use of GO in data analysis: can we raise the bar?
Other agenda items (12:15 - 12:30)
- Update on AmiGO/GO website Behave testing framework (Mary/Seth/Chris)
- Mary slides File:AutomatedTestingAmiGO2.pdf
- Upcoming Consortium meeting in Washington DC
Attendees
Please sign up so we know who can attend.
Name | Organization |
---|---|
Rama Balakrishnan | Stanford University, SGD |
David Hill | The Jackson Laboratory, MGI |
Harold Drabkin | The Jackson Laboratory, MGI |
Judy Blake | The Jackson Laboratory |
Mary Dolan | The Jackson Laboratory, MGI |
Li Ni | The Jackson Laboratory, MGI |
Dmitry Sitnikov | The Jackson Laboratory, MGI |
Karen Christie | The Jackson Laboratory, MGI |
Kimberly Van Auken | Cal Tech, Wormbase |
Paul Thomas | USC |
Huaiyu Mi | USC |
Moni Munoz-Torres | Lawrence Berkeley National Lab, BBOP |
Seth Carbon | Lawrence Berkeley National Lab, BBOP |
Chris Mungall | Lawrence Berkeley National Lab, BBOP |
Tanya Berardini | Phoenix Bioinformatics, TAIR |
Eva Huala | Phoenix Bioinformatics, TAIR |
Donghui Li | Phoenix Bioinformatics, TAIR |
Doug Howe | ZFIN |
Sabrina Toro | ZFIN |
Pascale Gaudet | GOC / neXtProt |
Marc Feuermann | Swiss-Prot |
Birgit Meldal | IntAct / Complex Portal |
Aleks Shypitsyna | UniProt-GOA, EMBL-EBI |
Penelope Garmiri | UniProt-GOA, EMBL-EBI |
Rebecca Foulger | UCL |
Ruth Lovering | UCL |
Rachael Huntley | UCL |
Tom Hayman | RGD |
Mary Shimoyama | RGD |
Shur-Jen Wang | RGD |
Stan Laulederkind | RGD |
Helen Attrill | FlyBase |
Midori Harris | PomBase |
Val Wood | PomBase |
Paola Roncaglia | EMBL-EBI |