POC Conf. Call 12-4-12
POC meeting, Webex Conference Call; Date: Tuesday Dec 4th, 2012 10am PST/1pm EST
In attendance:
POC members:
Absent:
Collaborators:
Plans for Upcoming Release #19
Timeline for Release: Goal is mid December 2012 Release_19
Priorities for inclusion in the Release:
- Revisions to PSDS:
- Fruit development stages
- New datasets: grape, cotton, rice
LC: will send MAG and YY a list of the new PAE terms that we need translations for.
PJ will be out last week of Nov, till Dec 2nd.
Wrapping up some open trackers:
lamina intramarginal vein
New term added by request:
leaf lamina intramarginal vein (new PO:0025520): A leaf lamina vein (PO:0020138) that is just inside the leaf lamina margin (PO:0025009) and extends from the leaf base (PO:0020040) to the leaf tip (PO:0025142).
Comment: The leaf lamina intramarginal vein is much thinner than the leaf midvein (PO:0020139; syn: midrib), and is of constant thickness.
Note: I think it is better to use leaf tip (the apical most portion of a leaf) rather than leaf apex (it is not precisely defined how far toward the base from the tip a leaf apex extends)
Additional photos here: http://www.flickr.com/photos/xylopia/4659513712/
Question: do these occur in other phyllomes such as petals? If so we should also create a phyllome lamina intramarginal vein.
K second mitotic division stage (PO:0001015)
Revised definition and comment, added new synonyms:
Revised definition: A pollen development stage (PO:0001007) during which the generative cell (PO:0020097) undergoes mitotic division to form two male gametes, the pollen sperm cells (PO:0025121).
Added two new synonyms, as requested: - tricellular stage (broad) - tricellular pollen development stage (exact)
Revised comment: In taxa with mature two-celled pollen (PO:0025281), the second mitotic division takes place after pollen germination (GO:0009846), in germinating pollen tube cell (PO:0025195).
Notes: The whole pollen development stage class requires work, as some of these terms (such as this one) describe processes, rather than stages, but we will add the synonyms for now and do further revisions for the next release.
This term overlaps with: generative cell mitosis (GO:0055047): The process in which the generative cell divides by mitosis to form two haploid cells. These will subsequently differentiate into sperm cells.
Plant Structure Dev Stage terms:
items will be moved here from Items_for_future_meetings page
Upcoming meetings and Presentations 2012-2013:
PAG 2013, San Diego, CA; January 12th - 16th, 2013
We will be running a workshop focusing on:
Applications of Ontologies for Plant and Animal Genomics
- Date and Time: Saturday, January 12, 2013: 08:00 AM - 10:10 AM, Royal Palm Salon 5-6
Speakers: Eva Huala, Reinhard Simon, Elizabeth Arnaud, Chris Mungall, and Pankal will present the cROP Vision
JP will be presenting a SIA Computer Demo:
Date and Time: Sunday, January 13, 2013; 5:20 PM, California room
Biocuration 2013 conference, Cambridge, 7-10th April 2013
submission deadline for papers and abstracts for posters is 30th November. Papers will be published by DATABASE.
possible venue for cROP white paper?
website and registration are now open: Biocuration 2013
PRO-PO-GO meeting, May 15-16th 2013
Please see this page for more information: PRO-PO-GO_Meeting
Location: Buffalo, NY
Dates: May 15-16th, 2013.
Goals:
- To educate members of the PRO, PO and GO communities concerning developments in each of the three ontologies, with a view to enhanced coordination
- To identify potentially fruitful applications which such enhanced coordination might bring
- To enhance the Protein Ontology treatment of plant-related proteins
- To address coordination issues between the GO and PO, for example as concerns treatment of development stages
- To further those aspects of CROP which relate to PRO and GO [this is assuming that PRO is included as one of the external ontologies in CROP]
Tentative participant list:
PO Consortium members: Pankaj Jaiswal and Laurel Cooper (OSU), Dennis Stevenson (NYBG), Barry Smith (Buffalo), others?
GO Consortium members: Jane Lomax (EBI), Judith Blake (JAX), Alex Diehl (Buffalo) who else?
PRO Consortium members: Cathy Wu, Alan Ruttenberg (Buffalo)
BS would like a list of who we would like to include in the meeting and whose costs can be covered by PO
MONOCOTS V Meeting at NYBG, July 5th - 14th, 2013
5th International Conference on Comparative Biology of Monocotyledons Friday, July 05, 2013 7:00 AM - Sunday, July 14, 2013 12:00 PM (Eastern Time)
The New York Botanical Garden & Fordham University
