POC Conf. Call 8-14-12

POC meeting, Webex Conference Call; Date: Tuesday Aug 14th, 2012 10am PDT/1pm EDT

In attendance:

POC members:

Absent:

Collaborators: none

Any changes or corrections (additions/deletions, etc) needed in the minutes from the POC_Conf._Call_7-31-12?

Back to POC Meetings Minutes

PO-GO-PRO meeting- Summer 2013

Suggestion from BS: A PO meeting including representatives from the PRO and the GO. The main focus would be addressing how PRO can meet PO's present and future needs; a secondary focus might be to go over some of our high-level / definitional issues with the GO (e.g. as concerns senescence) The proposal is to hold this meeting in summer 2013.

Aligning the top levels of plant structure development stage to plant structure

We have re-orginized the top levels of plant structure (PO:0009011), so the children of plant structure development stage (PO:0009012) should be re-organized to correspond.

current structure:

proposed structure:

We do not really need to add a term for "collective organ part structure development stage" at this point, but omitting it may create confusion.

New terms

Multi-tissue plant structure development stage

multi-tissue plant structure development stage (PO:new term), proposed def.: A plant structure development stage (PO:0009012) that has as primary participant a multi-tissue plant structure (PO:0025496).

comment: Examples include plant organ development stage (PO:0025339), fruit development stage (PO:0001002), and seed development stage (PO:0001170).

collective plant structure development stage

collective plant structure development stage (PO:new term), proposed def.: A plant structure development stage (PO:0009012) that has as primary participant a collective plant structure (PO:0025497).

Comment: Includes collective plant organ structure development stages (PO:0025338) such as flower development stage (PO:0007615), corolla development stage (PO:0007604), and inflorescence development stage (PO:0001083), as well as collective organ part structure development stages (PO:id).

collective organ part structure development stages (PO:id), proposed def.: A collective plant structure development stage (PO:id) that has as primary participant a collective organ part structure (PO:0025269)

comment: This term currently has not sub-classes, but can used for development stages of collective organ part structures (PO:0025269) such as a septum (PO:0000030) or pseudostem (PO:0025248).

Existing term:

collective plant organ structure development stages (PO:0025338), proposed revised def.: A collective plant structure development stage (PO:id) that has as primary participant a collective plant organ structure (PO:0025007).

comment: Examples include flower development stage (PO:0007615), corolla development stage (PO:0007604), and inflorescence development stage (PO:0001083). This was formerly named collective plant structure development stage.

Plant anatomical entity development stage?

Do we want to expand the development stage branch to include stages in the development of no-material entities and substances?

If so, will need a new top level terms called "plant anatomical entity development stage".

proposed def.:

Upcoming meetings and Presentations 2012-2013:

Online Ontology Workshops at The University at Buffalo: August 11th-12th; 18th-19th

The University at Buffalo is pleased to announce two on-line tutorials in ontology:

1. Introduction to Protégé for absolute beginners:

Saturday and Sunday, August 11-12, 2012.

Faculty: Ron Rudnicki (CUBRC, Buffalo), Alan Ruttenberg (University at Buffalo), Barry Smith (University at Buffalo)

This course will provide an introduction to the Protégé 4.2 ontology editor. It will begin with a brief introduction to ontology building, and to the use and importance of ontologies. This will be followed by an introduction to the Web Ontology Language (OWL). The bulk of the course will consist of an interactive introduction to the use of Protégé in building an ontology. No background in the use of computer languages and programming is presupposed. All sessions will be highly interactive.

2. Basic Formal Ontology 2.0

Saturday and Sunday, August 18-19, 2012

Faculty: Alan Ruttenberg and Barry Smith (University at Buffalo)

Basic Formal Ontology is currently being used by over 100 ontology-based research projects in biomedical informatics and increasingly in other fields. The tutorial will provide an introduction to the content and use of BFO in ontology development. Participants will acquire knowledge of the ontology and of its use as top-level ontology in multiple ontology development projects in a variety of fields. They will learn about the most recent developments in the new version 2.0 of the BFO ontology, including new formalizations of BFO in first-order logic and in OWL.

Both tutorials are also open for face-to-face participation.

NSF Plant Genome PIs Meeting

Sept 5-6th?

Need 2 pager and poster

Genome Informatics 2012

September 6th-9th Robinson College, Cambridge, UK

JP is attending and submitted a poster representing the PO

PO/TO Crop Annotation Workshop at OSU; Sept. 13-15th, 2012

For more information see the wiki page: Plant_Ontology_and_Crop_Annotation_Workshop_OSU_2012

Dates: Sept. 13-15th

The focus of the workshop will be on mostly development stages and traits for the crop plants

Phenotype RCN meeting, Oct 26-29th 2012

Asilomar, CA

PAG 2013, San Diego, CA; January 12-16, 2013

The PO will be running a workshop again- Need suggestions for speakers.

Want to focus on applications of the ontologies

Next meeting scheduled for Tuesday, Aug 28th, 2012 at 10am PDT/1pm EDT

See: POC_Conf._Call_8-28-12