Difference between revisions of "PAG 2011 Collaborators Workshop"
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'''Where:''' [http://intl-pag.org/TownCountryMap.pdf Town and Country Hotel], Hampton Room | '''Where:''' [http://intl-pag.org/TownCountryMap.pdf Town and Country Hotel], Hampton Room | ||
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==Summary and Objectives:== | ==Summary and Objectives:== | ||
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*'''10:35am: Ramona Walls, Plant Ontology Consortium''' | *'''10:35am: Ramona Walls, Plant Ontology Consortium''' | ||
| − | Title: | + | Title: Introduction to the Plant Ontology- Where does my project fit in? |
| + | [[Media:Walls_PO_intro.pdf]] | ||
*'''10:40am: Mary Schaeffer, [http://www.maizegdb.org/ MaizeGDB]''' | *'''10:40am: Mary Schaeffer, [http://www.maizegdb.org/ MaizeGDB]''' | ||
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The Plant Ontology is being utilized as MaizeGBD develops a Maize Gene Atlas. They are working on a large set of Nimblegen and RNA_Seq expression data, from 61 tissues, at various plant growth stages. These data will be added to the Plant Ontology's existing annotations. | The Plant Ontology is being utilized as MaizeGBD develops a Maize Gene Atlas. They are working on a large set of Nimblegen and RNA_Seq expression data, from 61 tissues, at various plant growth stages. These data will be added to the Plant Ontology's existing annotations. | ||
| − | + | [[Media:Schaeffer_MaizeGDB.pdf ]] | |
*'''10:55am: Claude dePamphilis [http://www.floralgenome.org/ Floral Genome Project],''' | *'''10:55am: Claude dePamphilis [http://www.floralgenome.org/ Floral Genome Project],''' | ||
| − | Title: The Floral Genome / Ancestral Angiosperm / and Amborella genome projects- | + | Title: The Floral Genome/Ancestral Angiosperm/and Amborella genome projects- Challenges for Applying Ontologies. |
Summary: An overview of their work on a number of basal species in the '''Floral Genome / Ancestral Angiosperm / and Amborella genome projects'''. This will include some of the results that have come along the from both developmental studies and transcriptome studies that may be of interest to plant ontology specialists. There are certainly some challenges for applying ontologies from other organisms on these plants, and work is needed to generate useful comparative ontologies. . | Summary: An overview of their work on a number of basal species in the '''Floral Genome / Ancestral Angiosperm / and Amborella genome projects'''. This will include some of the results that have come along the from both developmental studies and transcriptome studies that may be of interest to plant ontology specialists. There are certainly some challenges for applying ontologies from other organisms on these plants, and work is needed to generate useful comparative ontologies. . | ||
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| + | [[Media:DePamphilis_Ontology.pdf]] | ||
*'''11:10am: Stefan Rensing, [http://www.cosmoss.org/ ''Physcomitrella patens'' Resource]''' | *'''11:10am: Stefan Rensing, [http://www.cosmoss.org/ ''Physcomitrella patens'' Resource]''' | ||
| − | Title: | + | Title: MO - Moss/Bryophyte Ontology within PO |
| − | Summary: Stefan's group is developing a moss ontology. He will tell us about how they are developing the PO to MO mappings and annotating the Physcomitrella genome and transcriptome. | + | Summary: Stefan's group is developing a moss ontology. He will tell us about how they are developing the PO to MO mappings and annotating the ''Physcomitrella'' genome and transcriptome. |
| + | [[Media:Rensing_MO.pdf]] | ||
* '''11:25am: Nick Provart [http://bar.utoronto.ca/ BAR]''' | * '''11:25am: Nick Provart [http://bar.utoronto.ca/ BAR]''' | ||
| − | Title: | + | Title: Identification of Expressologs in Plant Species using Gene Expression Compendia |
| + | |||
| + | [[Media: Provart_PO.pdf]] | ||
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*'''11:40am: Ken McNally IRRI [http://beta.irri.org/index.php/Home/Welcome/Frontpage.html IRRI] ''' | *'''11:40am: Ken McNally IRRI [http://beta.irri.org/index.php/Home/Welcome/Frontpage.html IRRI] ''' | ||
| − | Title: | + | Title: Ontological Implications from Sequencing the Global Rice Collections |
Summary: Sequencing of genetic resource accessions in Rice. They are characterizing the 120,000 rice accessions (both genotypic and phenotypic diversity). | Summary: Sequencing of genetic resource accessions in Rice. They are characterizing the 120,000 rice accessions (both genotypic and phenotypic diversity). | ||
| + | [[Media: KMcNally_IRRI.pdf]] | ||
'''11:55am: Closing Comments and Summary''' | '''11:55am: Closing Comments and Summary''' | ||
Latest revision as of 17:20, 1 November 2012
Date and Time:
Sunday, January 16th, Late Morning to include a buffet lunch
Time: 10:30-1:00 pm (will wrap up in time to get to 1:30 sessions)
Where: Town and Country Hotel, Hampton Room
Summary and Objectives:
The goal of the workshop is to develop and enrich collaborations with other groups in the Plant Sciences and to demonstrate the utility of the PO in annotating large plant genomics datasets.
- We will have 5 speakers from groups who are current or potential collaborators
- The goal is to show a range of uses and highlight the utility of the Plant Ontology to the plant science community.
- Each speaker will have about 10-15 minutes, including time for questions, (~ 5-10 slides)
- We will have a 'working lunch' where folks can mingle and continue discussions
Agenda:
10:30am: Welcome and Opening
Laurel Cooper, Coordinator, Plant Ontology Consortium
List of Speakers and Topics: Talks will be followed by time for discussion and networking lunch
- 10:35am: Ramona Walls, Plant Ontology Consortium
Title: Introduction to the Plant Ontology- Where does my project fit in?
- 10:40am: Mary Schaeffer, MaizeGDB
Title: Plant Ontology and the Maize B73 Gene Atlas Wisconsin 2010
Summary: The Plant Ontology is being utilized as MaizeGBD develops a Maize Gene Atlas. They are working on a large set of Nimblegen and RNA_Seq expression data, from 61 tissues, at various plant growth stages. These data will be added to the Plant Ontology's existing annotations.
- 10:55am: Claude dePamphilis Floral Genome Project,
Title: The Floral Genome/Ancestral Angiosperm/and Amborella genome projects- Challenges for Applying Ontologies.
Summary: An overview of their work on a number of basal species in the Floral Genome / Ancestral Angiosperm / and Amborella genome projects. This will include some of the results that have come along the from both developmental studies and transcriptome studies that may be of interest to plant ontology specialists. There are certainly some challenges for applying ontologies from other organisms on these plants, and work is needed to generate useful comparative ontologies. .
Media:DePamphilis_Ontology.pdf
- 11:10am: Stefan Rensing, Physcomitrella patens Resource
Title: MO - Moss/Bryophyte Ontology within PO
Summary: Stefan's group is developing a moss ontology. He will tell us about how they are developing the PO to MO mappings and annotating the Physcomitrella genome and transcriptome.
- 11:25am: Nick Provart BAR
Title: Identification of Expressologs in Plant Species using Gene Expression Compendia
- 11:40am: Ken McNally IRRI IRRI
Title: Ontological Implications from Sequencing the Global Rice Collections
Summary: Sequencing of genetic resource accessions in Rice. They are characterizing the 120,000 rice accessions (both genotypic and phenotypic diversity).
11:55am: Closing Comments and Summary
Pankaj Jaiswal, Plant Ontology Consortium
Build-Your-Own Sandwich Buffet Lunch
- Soup du Jour
- Sandwich Buffet:
Selection of Sliced Meats and Cheeses
Assorted Freshly Baked Deli Breads
Condiments to include leaf lettuce, sliced tomatoes, onions, mayonnaise and mustards
Crisp potato chips
- Salad Selections:
Red Potato Salad
Pasta Salad Primavera
Marinated Tomatoes and Cucumbers
Variety of Seasonal Greens with Choice of Dressings
- Deserts:
Assorted whole fresh fruits
Chef's Sweets Table
- Freshly brewed coffee, decaffeinated coffee and tea
