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| | The [https://docs.google.com/document/d/1YBCEeSl1MKPvtRNAMGBGcOZqdZl3wlbwWC1nuDnccqE/edit#heading=h.fnyazerr648a GO User Meeting] will be held on Monday, October 7, 2019 at 717 |
| | Potter St., Berkeley, CA. For more info, see the Logistics page for the main meeting: http://wiki.geneontology.org/index.php/2019_Berkeley_GOC_Meeting_Logistics |
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| = GO User Meeting = | | == Agenda == |
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| == General == | |
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| The GO User Meeting will be held on Monday, October 7, 2019 at 717
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| Potter St., Berkeley, CA. There is no formal sign-up at this point, but if you are interested in attending, please contact the organizers. For access and other logistic points, see the Logistics page for the main meeting: http://wiki.geneontology.org/index.php/2019_Berkeley_GOC_User_Meeting_Agenda
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| The GO has a broad base of users, including biologist researchers,
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| computational biologists, and bioinformaticians. This meeting is an
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| opportunity for users at LBNL and in the SF Bay Area to interact with
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| members of the GO Consortium, to share research and existing GO use
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| cases, learn more about best practices using GO, and future
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| developments such as GO-CAMs.
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| == Schedule ==
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| <strong class="previewnote"><b>Note: speakers and talk titles to be finalized</b></strong>
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| Morning: How GO and GO annotations are made
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| * 9.00-9.30 Overview of GO -- Chris Mungall
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| * 9.20-9.35 Literature biocuration and ontology development in GO -- Kimberly or David, GO Consortium
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| * High-level, emphasize that neither ontologies nor annotations are static, we are responsive to community
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| * 9.35-9.50 GO annotation pipelines: interpro2go, PAINT/PantherDB -- Huaiyu Mi, GO Consortium
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| * Specifically mention new work on plants as this would be of interest
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| * Have a separate phylogenes.org presentation from Peifen Zhang?
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| * 9.50-10:00 phylogenes project: Peifen Zhang, Phoenix Bioinformatics/TAIR
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| * 10:00-10.10 Getting GO annotations -- Seth Carbon, GO Consortium
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| * High level - where to go to get official GOC downloads, AmiGO, briefly mention APIs
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| * 10.10-10.20 Fungal functional annotation pipeline at JGI -- Igor Grigoriev, JGI
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| * 10.20-10.30 Microbial functional annotation pipeline: JGI/NMDC perspective -- Kjiersten? NERSC/JGI/NMDC
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| * 10:30-10:35 Phytozome GO annotation pipeline - Joe Carlson, JGI/Phytozome
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| Break (15 mins)
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| * 10:50-11:00 GO annotation in GMOD/Apollo -- Ian Holmes, UCB/LBNL
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| * 11:00-11:05 Multi-organism annotation with GO: Michelle Gwinn Giglio, UoM
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| * 11:05-11.15 Unknowns -- Val Wood, PomBase, GO Consortium
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| * 11:15-11:30 Group Discussion
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| Lunch 11.30-1.00
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| Afternoon
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| Using GO and functional annotation for data analysis
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| * 1.00-1.15 Introduction to GO enrichment -- Huaiyu Mi or Paul T, GO Consortium
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| * Most in the audience will be somewhat familiar, this is an opportunity to promote best practice, use official GO enrichment, perils of using old sites e.g DAVID
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| * 1.15-1.25 GO in space: using functional annotations to analyze brain radiation exposure omics data -- Laurent Phillipe (GO) or Andy Wyrobek (BSE)
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| * 1.25-1.30 TBD -- Ruth Lovering, UCL, GO Consortium
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| * 1.25-1.35 Analysis of mouse QTL data using GO -- Antoine Snijders, BSE
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| * 1.35-1.45 TBD -- Axel Visel or Diane Dickel, BSE
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| * 1.45-1.55 Metabolomics use cases and MAGI -- Ben Bowen, JGI
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| * 1:55-2.05 GO in KBase -- Paramvir Dehal, KBase/LBL
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| * 2.05-2.25 Lies, damn lies and annotations -- Morgan Price, EGSB
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| Break
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| GO: New developments
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| * 3.00-3.20 GO Causal Activity Models -- Chris M or Paul T, GO Consortium
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| * Standard GO-CAM talk, many will be hearing for first time
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| * 3.20-3.30 GO and Reactome -- Ben Good (GO) or Peter d’Eustachio (Reactome)
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| * 3.30-3.45 GO, metabolic pathways, and enzymatic reactions with Rhea -- Chris M or David H or Alan B
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| * Emphasize high-quality reaction annotations, EC not moving fast enough, uniprot curating directly to RHEA now, GO tightly coupled. Also mention links to other databases
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| * 3.45-4pm GO and other ontologies -- Chris M
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| | Please see https://docs.google.com/document/d/1YBCEeSl1MKPvtRNAMGBGcOZqdZl3wlbwWC1nuDnccqE/edit# for the detailed schedule. |
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| [[Category: Meetings]] | | [[Category: Meetings]] |