PAG 2011 Collaborators Workshop

This page is under construction.....

When: Proposed Time: Sunday Late Morning to include lunch

Time 10:30-1:00 pm (will wrap up in time to get to 1:30 sessions)

Where: Town and Country Hotel, Room TBA

What: The plan will be to have about 5 speakers from groups that use the PO or send annotations to us. The goal is to show a range of types of uses and highlight the utility of the PO to the plant science community. Each speaker will have about 10 minutes, including time for questions, (~ 5-10 slides)?

We will plan to have a 'working lunch' where folks can mingle and continue discussions

who:

* MaizeGDB: Carolyn Lawrence, Mary Schaeffer, Jack Gardiner.

Mary Schaeffer has said that their group can come and she has offered to speak about how the PO is being utilized as they develop 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.

They are working on initially mapping the expressed sequences to coordinates, and by inference then, to gene models.

They anticipate being able to provide associations for gene models expressed highly to the PO. This will be a substantial number of associations.

Mary has suggested that she could discuss how each 'tissue' is annotated to the PO terms.

Other Groups to Invite:

These groups will be represented at PAG

• Solanaceae Genome network (SGN); Lukas Mueller + Naama Menda; see Solanaceae Workshop

• Gramene Gramene See: Gramene workshop at PAG

• TAIR email: curator@arabidopsis.org

• Plex DB Roger P. Wise, Julie A. Dickerson, Rico A. Caldo

• Blake Meyer (meyers@dbi.udel.edu) see International Arabidopsis Informatics Consortium (IAIC) Workshop

• Physco group: Rensing and Lang see Non-seed plant workshop

• Genome Database for Roseae (GDR), Univ of Washington see Fruit and Nut workshop

• Brian Smith White- NCBI NCBI Workshop

• Helen Parkinson- Array Express EBI

• Genevestigator: contact ? (support@genevestigator.com) Ontologies

• VirtualPlant who, use their "contact us" form? Virtual plant

Michael Barker see

Others:?

• Nottingham Arabidopsis NASC Ontology page

• SoyBase- Rex Nelson?

• OryzaBase: to: Yukiko Yamazaki

• PlantTribes: to: PI: Claude dePamphilis (Penn State) cwd3@psu.edu

• TraitNet: Coordinators Farshid Ahrestani (fa2260@columbia.edu) and Dan Bunker (dbunker@njit.edu)

• CIMMYT, Mexico Generation Challenge Program: Rosemary Shretha

• BRENDA to:project leader Prof. Dr. Dietmar Schomburg

• UniProt "contact us" page

• BAR: Nicholas Provert and Rohan Patel

• Trish Whetzel and BioPortal-