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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 ==
| | Please see https://docs.google.com/document/d/1YBCEeSl1MKPvtRNAMGBGcOZqdZl3wlbwWC1nuDnccqE/edit# for the detailed schedule. |
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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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| === 9am-noon: Presentations ===
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| Introductory session
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| * 9:00-9:20: Welcome (Chris)
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| How GO and GO annotations are made
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| * 9.20-9.35 Literature biocuration and ontology development in GO -- GO Consortium
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| * 9.35-9.50 GO annotation pipelines: interpro2go, PAINT/PantherDB -- Huaiyu Mi, GO Consortium
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| * 9.50-10.00 Getting GO annotations -- Seth Carbon, GO Consortium<br />Where to go to get official GOC downloads, AmiGO, APIs.
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| * 10.00-10.10 Fungal functional annotation pipeline at JGI -- Igor Grigoriev, JGI
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| * 10.10-10.20 Microbial functional annotation pipeline: JGI/NMDC perspective -- NERSC/JGI/NMDC
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| * TBD - GO annotation in GMOD/Apollo -- Ian Holmes, UCB/LBNL
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| * 10.20-10.30 GO in KBase -- Paramvir Dehal, KBase/LBL
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| * 10.30-10.45 Group discussion
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| * 10.45-11.00 Coffee
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| Using GO and functional annotation for data analysis
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| * 11.00-11.15 Introduction to GO enrichment -- GO Consortium<br />Best practice, use official GO enrichment, perils of using old sites.
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| * 11.15-11.25 GO in space: using functional annotations to analyze brain radiation exposure omics data -- Laurent-Phillipe Albou (GO) or Andy Wyrobek (BSE)
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| * 11.25-11.35 Analysis of mouse QTL data using GO -- Antoine Snijders, BSE
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| * 11.35-11.45 TBD -- Axel Visel or Diane Dickel, BSE
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| * 11.45-11.55 Metabolomics use cases and MAGI -- Ben Bowen, JGI
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| * 11.55-12.15 Lies, damn lies and annotations -- Morgan Price, EGSB
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| * 12.15-12.30 Group discussion
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| === Lunch 12.30-1.30 ===
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| This will not be provided--everybody will need to feed themselves.
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| === GO: New developments ===
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| * 1.30-1.50 GO Causal Activity Models -- Chris Mungall or Paul Thomas, GO Consortium<br />Overview GO-CAM talk--the next generation of functional modeling.
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| * 1.50-2.10 GO and Reactome -- Ben Good (GO) or Peter d’Eustachio (Reactome)
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| * 2.10-2.30 GO, metabolic pathways, and enzymatic reactions with Rhea -- TBD
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| * 2.30-2.45 GO and other ontologies -- Chris Mungall
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| === Afternoon Breakout Sessions ===
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| Possible topics:
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| * GO-CAM (with possible enrichment)
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| * GO and Microbial annotation: mappings from existing systems, pipelines
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| * Alliance (AGR) data flow use cases
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| * GO APIs and Data access, Jupyter notebooks etc
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| == TBD ==
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| Additional topics are under consideration.
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| [[Category: GO Users Meetings]]
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| [[Category: GO Consortium Meetings]] | |