POC Conf. Call 1-25-11

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POC meeting, Webex Conference Call; Date: Tuesday Jan 25th, 2011 10am (PST)

In attendance:

POC members:

Absent:

Collaborators:


Acceptance of the minutes from the POC Conf. Call 1-11-11?

Priorities for the Next Round of Revisions

  • Target date for the next release?

Lets plan for early to mid march. (Before spring break!)

We will also plan on having the manuscript for Plant Physiology ready at about the same time. Need to do updates to PGDSO first so we can include them in the MS.


Defining Goals and Priorities for the next round of revisions:

From 10-6-10 meeting:

  • Deal with and complete the list of user requests on SourceForge (see [1]). High priority
  • Plant Growth and development Stage Ontology restructuring should be a focus -- to add terms from non-angiosperms

-In the fall LC, RW and BS worked on restructuring PGDSO to meet BFO standards. Have a proposal to show group. For next meeting- 1/25/11?? High priority

-Once overall structure is decided upon, need to create a better framework for non-angiosperm terms

  • Better organization of descendants of portion of plant tissue: Needs to be organized better, add some new categories for tissue types
  • add terms for non-angiosperm structures- need to select areas of focus and create list

-From 10-6-10 minutes: Ramona will work on list. Should focus on reproductive structures, terms used by model systems such as Phsyco, Selaginella, Loblolly pine, etc., plus whatever terms are needed for the EST library from the Genomics of Seed Plants project.

Establish 'working groups' to add lower level terms? For example: RW and DWS (and MAG?) could add the Phsyco terms using the NYBG numberspace.

-Work with Physco group to add terms for mosses

  • Adding links to images through PlantSystematics.org-

Ramona visited with Ale in October 20th, 2010 to work on this and we discussed it at the November, 2010 POC meeting at NYBG.

Note: tepal is only term linked right now (no longer working?). Should be linked to the PO ids - have PO ids embedded in the Plantsystematics.org database.

MAG has a lot of the images ready and so these can be part of the next release. Need to get our 'prototype page' up

  • Laurel and Ramona will focus more on adding annotations-

LC set up a call with RW and PJ to discuss. 1-2 days per week. EST libraries, RNA seq datasets.

  • Complete compliance with OBO foundry principles-

Once the release is out, Laurel will ask BS what stage we are in the acceptance process. is_a completeness is a priority for this.

  • Convert existing definitions to genus-differentia form? Ongoing...


User requests still open on Source Forge; PGDSO

tuber growth and development stages

This item has been open on SF since 6/2009

I have a bunch of potato genes which are expressed in different tuber developmental stages (e.g. the potato pmt gene is expressed in small sprouts only (http://www.ncbi.nlm.nih.gov/pubmed/16088399).

Suggested stages:

-sprout development (does this correspond to tube axillary bud development? Should come after tuber maturation)

-tuber initiation

-tuber growth

-tuber maturation

How we work these in will depend on restructuring of PGDSO

l development in legumes (Plant Physiol, March 2003, Vol. 131, pp. 911-926

terms for seed development stages

This is a fairly new request for terms for cotton

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