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Common reference Ontologies for Plant Biology (www.planteome.org)
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Ontology and software development Workshop, November 9-13, 2015, Oregon State University, Corvallis, OR
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Monday Day-1Tuesday Day 2Wednesday Day 3Thursday Day 4Friday Day 5
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11/9/201511/10/201511/11/201511/12/201511/13/2015
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LOCATIONCH2M Alumni Center- Willamette RoomCh2 Alumni center3056 Cordley hallCh2 Alumni centerLa-Selles center
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8:30-9:00Breakfast/morning snacksBreakfast/morning snacksBreakfast/morning snacksBreakfast/morning snacksBreakfast/morning snacks
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9:30-10:30Welcome & Planteome Project Introduction (Pankaj)Overview from Day-1Overview from Day-2Overview from day-3 Overview from day-4
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Rex Nelson-SoyBaseBarry to work with CuratorsPIs hold project discussion- EA and DWS call inOBO and protegeOntology enrichment tool (Botong+Jaden)AmiGO2
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Vilma + Omar -CIPBioversity and Planteome Discussion (Leo + Lol + Marie)TermGenie
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AISO-Bisque (Preece + others)
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10:30-11:00Coffee breakCoffee breakCofee breakCoffee breakCoffee breakCoffee break
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11:00-11:30GitHub Introduction (Chris and Laurel)Termgenie demo (Chris)
Workflow discussion- Planteome, IBP, BMS, CassavaBase		Software development (Justin, Seth) + Eugene's groupAnnotation exerciseSoftware development (Justin, Chris, Seth)
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11:30-12:00Leo- BioversityProtege introduction and tutorial
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12:00-12:30continued...trait evaluation on germplasm: trait discriptors in germplasm repository.Protégé training (hands on) -adding terms to TOGoup Discussion
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12:30-1:30LunchLunchLunchLunchLunch
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1:30 - 2:00Karthika - LentilsMarie-Angelique- templates for traitsCurators time for ind work or outdoor activities- field trip to coastAmiGO Software development (Justin, Chris, Seth)Protégé training (hands on) -adding terms to TOSoftware development (Justin, Chris, Seth)Annotation exercise
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2-3pmBarry Smith- Ontology theory intro/overview- basis of ontologies, OBO Foundry, new developmentsSoftware development (Justin, Seth)
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3-3:15pmCoffee breakCoffee breakCofee break
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3:30-4:30General Framework discussion- plenary- Hub spokes structure, reasoning, coordination, reuse of terms, licensing, discoverabilityDiscussion of the Plant Stress Ontology- design and principlesProtégé training (hands on) -adding terms to TOSoftware development (Justin, Chris, Seth)
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4:30-5:30Reference Ontologies (Laurel + Austin) ???Protege demo/tutorial continued
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6:00-onwardsDinnerDinner at Pankaj and Sushma's Home- 7pmDinner on your ownDinner
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Barry Departs by 5pm
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