POC Conf. Call 7-19-11 - Revision history

Cooperl at 19:37, 8 March 2012

2012-03-08T19:37:13Z

Cooperl: /* Letter for OBO-Foundry acceptance */

2011-07-27T07:17:55Z

Letter for OBO-Foundry acceptance

Cooperl: /* Letter for OBO-Foundry acceptance */

2011-07-27T07:16:29Z

Letter for OBO-Foundry acceptance

Cooperl: /* Letter for OBO-Foundry acceptance */

2011-07-27T07:16:02Z

Letter for OBO-Foundry acceptance

Cooperl: /* Request from Cell Ontology (CL) */

2011-07-22T23:39:19Z

Request from Cell Ontology (CL)

Cooperl: /* User requests, Plant Anatomy Ontology: */

2011-07-22T21:49:15Z

User requests, Plant Anatomy Ontology:

Cooperl: /* style, silk, Poaceae style */

2011-07-22T21:49:00Z

style, silk, Poaceae style

Cooperl: /* leaf base */

2011-07-22T21:48:44Z

leaf base

Cooperl: /* transition leaf - definition */

2011-07-22T21:48:29Z

transition leaf - definition

Cooperl: /* Legume terms submitted by Austin Mast */

2011-07-22T21:48:19Z

Legume terms submitted by Austin Mast

← Older revision		Revision as of 19:37, 8 March 2012
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	Acceptance of the minutes from the [[POC_Conf._Call_7-12-11]]? ''There were no changes, additions, or deletions.''		Acceptance of the minutes from the [[POC_Conf._Call_7-12-11]]? ''There were no changes, additions, or deletions.''
−
−	~~[https://ontology.webex.com/ontology/ldr.php?AT=pb&SP=MC&rID=55498702&rKey=0d45ad119803a68d Streaming recording link]~~
−
−	~~[https://ontology.webex.com/ontology/lsr.php?AT=dw&SP=MC&rID=55498702&rKey=49244ec661ae1b05 Download recording link]~~
−

@@ Line 50: / Line 50: @@
 =Letter for OBO-Foundry acceptance=
 Comments from BS:
@@ Line 59: / Line 61: @@
-[[OBO_Foundry]]
+See the associated page that LC created to gather the information for the OBO review : [[OBO_Foundry]]
 =Plant Physiology Publication=

← Older revision		Revision as of 07:16, 27 July 2011
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−	[OBO_Foundry]	+	[[OBO_Foundry]]

	=Plant Physiology Publication=		=Plant Physiology Publication=

@@ Line 57: / Line 57: @@
 * ''Also should mention that PO is supporting tool development. Not in the OBO Foundry criteria, but will impress reviewers with good citizenship.''
 * ''Need to make the discussion of the relations consistent- derives_from an experimental manipulations''
 =Plant Physiology Publication=

@@ Line 177: / Line 177: @@
 CL plans to obsolete most of its plant cell types, and add xrefs to those for PO terms.
-CL will provide bridge files as part of the CL release process. An example of this is provided in the WOMBO paper (upcoming at IBCO).
+CL will provide bridge files as part of the CL release process. An example of this is provided in the [http://icbo.buffalo.edu/2011/WorkshopB_Program.pdf WOMBO paper] (upcoming at IBCO).
 PO has appropriate terms for all but four of the CL terms, although two of the terms are obsolete (PO:0000373  mucilage cell and PO:0000020 starch sheath cell).

@@ Line 220: / Line 220: @@
 =User requests, Plant Anatomy Ontology:=
-''postponed until a future meeting- see [[POC_Conf._Call_8-2-11]]''
+'''''postponed until a future meeting- see [[POC_Conf._Call_8-2-11]]'''''
 ==[https://sourceforge.net/tracker/?func=detail&aid=3040048&group_id=76834&atid=835555 Legume terms] submitted by Austin Mast==

← Older revision		Revision as of 21:49, 22 July 2011
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	===[http://sourceforge.net/tracker/?func=detail&aid=3357921&group_id=76834&atid=835555 style, silk, Poaceae style]===		===[http://sourceforge.net/tracker/?func=detail&aid=3357921&group_id=76834&atid=835555 style, silk, Poaceae style]===
−
−	From Mary at MaizeGDB: Suggest that you merge these, keeping style, obsoleting silk and Poaceae style. Do the same for other floral parts that have a species spin on them, but are really the same as other more generic names for flower parts.
−
−	~~From PJ: Poaceae / Zea was necessary in some terms because often~~
−	~~detail structures referred to parts of tassel/ear floret and it has~~
−	~~conflict with floret compositeae besides the spatial aspects.~~
−
−
−	Rather than working on this piecemeal, we need to have an organized approach to eliminating the Poacaeae/Zea terms. Need to look at the structure from the top down and ensure part_of relations remain correct. Do we want to allocate time to this now or wait for next release?
−
−	~~See page for [[Eliminating Zea/Poaceae terms from PO]]~~
−
−	~~42 terms in PAO with Poaceae in the name.~~
−
−	~~28 terms in PAO with Zea in the name.~~
−
−	~~Only on Poaceae terms in PGDSO, and it is on today's agenda to merge with another term.~~

	=Upcoming meetings 2011:=		=Upcoming meetings 2011:=

← Older revision		Revision as of 21:48, 22 July 2011
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	===[http://sourceforge.net/tracker/?func=detail&aid=3356716&group_id=76834&atid=835555 leaf base]===		===[http://sourceforge.net/tracker/?func=detail&aid=3356716&group_id=76834&atid=835555 leaf base]===
−
−	~~See tracker item for details.~~
−
−	~~I think Mary's questions have been answered, and this item can be closed. We can add a comment to it once we resolve the issue of transferring annotations for parts of leaf.~~

	===[http://sourceforge.net/tracker/?func=detail&aid=3357921&group_id=76834&atid=835555 style, silk, Poaceae style]===		===[http://sourceforge.net/tracker/?func=detail&aid=3357921&group_id=76834&atid=835555 style, silk, Poaceae style]===

← Older revision		Revision as of 21:48, 22 July 2011
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	===[http://sourceforge.net/tracker/?func=detail&aid=3324058&group_id=76834&atid=835555 transition leaf - definition]===		===[http://sourceforge.net/tracker/?func=detail&aid=3324058&group_id=76834&atid=835555 transition leaf - definition]===
−
−	From Mary at MaizeGDB: It would be helpful to add some insights on the transition leaf. For example - Leaves that have mosaics of juvenile and adult tissues. In maize, the juvenile will be at the tip, which differentiates first, with adult at the base. Other grasses may have other arrangements, eg Brachypodium, which may have both juvenile and adult across the breadth of a leaf. Provided by Erin Irish, who references t his paper: Irish, E. E. and Karlen, S. (1998) Restoration of juvenility in maize shoots by meristem culture. International Journal of Plant Science 159, 695-701. The Brachy. information is more recent.
−
−	'''Suggest adding to the comment of juvenile leaf, transition leaf and adult leaf:''' Many species have juvenile leaves are at the base of the stem, adult leaves at the apex, and transition leaves in between. In maize, juvenile leaves will be at the tip of the stem, which differentiates first, with adult at the base, while other grasses may have other arrangements. Transition leaves may have mosaics of juvenille and adult tissues, as in Brachypodium.
−
−	~~Can add Irish and Karlen reference to definition dbxrefs if it is appropriate.~~

	===[http://sourceforge.net/tracker/?func=detail&aid=3356716&group_id=76834&atid=835555 leaf base]===		===[http://sourceforge.net/tracker/?func=detail&aid=3356716&group_id=76834&atid=835555 leaf base]===

@@ Line 223: / Line 223: @@
 ==[https://sourceforge.net/tracker/?func=detail&aid=3040048&group_id=76834&atid=835555 Legume terms] submitted by Austin Mast==
 ===[https://sourceforge.net/tracker/?func=detail&aid=3165984&group_id=76834&atid=835555 phyllode]===
 ==Maize GDB==