PAG 2011 Collaborators Workshop
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, Windsor Room
See list of other potential speakers and invitees PAG 2011 PO Workshop Invitees and Speakers
Summary and Objectives:
- We have about 4 or 5 speakers from groups that use the PO or share annotations with us, or who we would like to develop collaborations with
- 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 minutes, including time for questions, (~ 5-10 slides)
- We will have a 'working lunch' where folks can mingle and continue discussions
Agenda:
10:30am: Introduction and Welcome (Laurel Cooper, Coordinator, Plant Ontology Consortium)
10:40am: Mary Schaeffer, MaizeGDB
Title: TBA
The Plant Ontology 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. These data will be added to the Plant Ontology's existing annotations.
* 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.
Others:
- Genevestigator: contact? (support@genevestigator.com) Ontologies
- VirtualPlant who, use their "contact us" form? Virtual plant
- Shoshi Kikuchi, National Institute of Agrobiological Sciences, Japan
- Helen Parkinson- Array Express EBI
- Nottingham Arabidopsis NASC Ontology page
- OryzaBase: to: Yukiko Yamazaki
- TraitNet: Coordinators Farshid Ahrestani (fa2260@columbia.edu) and Dan Bunker (dbunker@njit.edu)
- CIMMYT, Mexico Generation Challenge Program: Rosemary Shrestha, Elizabeth Arnaud? see: GCP workshop
- BRENDA to:project leader Prof. Dr. Dietmar Schomburg
- UniProt "contact us" page ? Rachel Huntley, someone doing plant annotations from SwissProt
- BAR: Nicholas Provert and Rohan Patel
