POC Conf. Call 1-17-12 - Revision history

Cooperl at 20:58, 24 January 2012

2012-01-24T20:58:42Z

Cooperl at 20:58, 24 January 2012

2012-01-24T20:58:25Z

Rwalls: /* leaf lamina (PO:0020039) */

2012-01-19T18:00:17Z

leaf lamina (PO:0020039)

Rwalls: /* plant spore stage (PO:0025375) */

2012-01-19T17:38:45Z

plant spore stage (PO:0025375)

Rwalls: /* spore (PO:0025017) */

2012-01-19T17:34:30Z

spore (PO:0025017)

Rwalls: /* spore (PO:0025017) */

2012-01-19T17:25:03Z

spore (PO:0025017)

Rwalls: /* ICBO 2012 */

2012-01-19T15:05:21Z

ICBO 2012

Rwalls: /* other */

2012-01-19T13:37:37Z

other

Rwalls: /* lobe and tooth */

2012-01-19T13:37:24Z

lobe and tooth

Rwalls: /* New terms and changes arising from previous discussions */

2012-01-19T13:34:48Z

New terms and changes arising from previous discussions

← Older revision		Revision as of 20:58, 24 January 2012
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	Any changes or corrections (additions/deletions, etc) needed in the minutes from the POC_Conf._Call_1-10-12? ''No additions, deletions, or changes.''		Any changes or corrections (additions/deletions, etc) needed in the minutes from the POC_Conf._Call_1-10-12? ''No additions, deletions, or changes.''

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−	~~Streaming recording link: https://ontology.webex.com/ontology/ldr.php?AT=pb&SP=MC&rID=61626357&rKey=2ed0f6b9605e3a0c~~
−	~~Download recording link:~~
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−	~~https://ontology.webex.com/ontology/lsr.php?AT=dw&SP=MC&rID=61626357&rKey=930c88626171410a~~

	Back to [[POC Meetings Minutes]]		Back to [[POC Meetings Minutes]]

← Older revision		Revision as of 20:58, 24 January 2012
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	Any changes or corrections (additions/deletions, etc) needed in the minutes from the POC_Conf._Call_1-10-12? ''No additions, deletions, or changes.''		Any changes or corrections (additions/deletions, etc) needed in the minutes from the POC_Conf._Call_1-10-12? ''No additions, deletions, or changes.''
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		+
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		+	Streaming recording link: https://ontology.webex.com/ontology/ldr.php?AT=pb&SP=MC&rID=61626357&rKey=2ed0f6b9605e3a0c
		+	Download recording link:
		+
		+	https://ontology.webex.com/ontology/lsr.php?AT=dw&SP=MC&rID=61626357&rKey=930c88626171410a

	Back to [[POC Meetings Minutes]]		Back to [[POC Meetings Minutes]]

@@ Line 196: / Line 196: @@
-'''proposed new term, phyllome lamina:''' A lamina that is part of a phyllome.
+'''proposed new term, phyllome lamina (PO:0025396):''' A lamina that is part of a phyllome.
@@ Line 207: / Line 207: @@
 ''New proppsed definitin: A phyllome lamina that is the part of a leaf exclusive of the petiole or sheath, if either is present.''
-''Comment: A leaf lamina is usually dorsiventrally flattened, but may be flattened in a median plant (perpendicular to the axis) in the case of phyllodes (PO:0025335) or other ensiform leaves (PO:0025333). This term should not be used for leaves that are not laminar (flat), like round leaves in Allium or needle-like leaves in Pinus or Protaceae.''
+''Comment: A leaf lamina is usually dorsiventrally flattened, but may be flattened in a median plant (perpendicular to the axis) in the case of phyllodes (PO:0025335) or other ensiform leaves (PO:0025333). This term should not be used for leaves that are not laminar (flat), like round leaves in Allium or needle-like leaves in Pinus or some Proteaceae.''

@@ Line 152: / Line 152: @@
 intersection of is_a gametophyte development stage, has_participant spore
-''Get rid of comment that says "ends with the first cell division of a spore" because sometimes the spore divides before it germinates.''
+''Get rid of comment that says "ends with the first cell division of a spore" because sometimes the spore divides before it germinates. Add comment: There may be cell division in a spore before it germinates.''
 ==[https://sourceforge.net/tracker/?func=detail&aid=3469817&group_id=76834&atid=835555 plant spore dormant stage (PO:0025376)]==

@@ Line 143: / Line 143: @@
 ''Revised definition: A whole plant that arises through meiosis and develops into a gametophyte.''
-''Put comment that it is single-celled in homosporous forms and may be multicellular in heterosporous plants.''
+''Put comment that it is single-celled in homosporous ferns and may be multicellular in heterosporous plants.''
 ==[https://sourceforge.net/tracker/?func=detail&aid=3469811&group_id=76834&atid=835555 plant spore stage (PO:0025375)]==

@@ Line 129: / Line 129: @@
 ==[https://sourceforge.net/tracker/index.php?func=detail&aid=2972117&group_id=76834&atid=835555 spore (PO:0025017)]==
-''May want to review this next week.''
+''May want to review this next week. May need to be more specific in definition. Maybe add something about the exine.''
 Spore is_a cell, which is correct, but it is also a whole plant. Just as we changed the definition of [https://sourceforge.net/tracker/?func=detail&aid=3459493&group_id=76834&atid=835555 plant zygote] to reflect its dual nature, I suggest we change spore. Also suggest that we rename it plant spore, for consistency.

@@ Line 340: / Line 340: @@
 * June 30th 2012: Deadline for all camera-ready copies for the proceedings
-Possible topics: finding commonality in development stages across the plant kingdom (revisions of PGDSO), plant phenotypes in ontologies, community driven annotation efforts (new application from JP and others), others?
+BS would like to collaborate on a preliminary paper on Plant Disease Ontology. RW will review IDO and summarize what is there already for plants, what is needed, how it will link to PO. LC will also collaborate.
-BS would like to collaborate on a preliminary paper on Plant Disease Ontology. RW will review IDO and summarize what is there already for plants, what is needed, how it will link to PO. LC will also collaborate.
+RW is working on an abstract summarizing the PO-FNA collaboration, with the folks from FNA. Will circulate soon. This will be either for a poster or a short talk in the Early Career Researcher session.
 BS will be organizing an OBO Foundry meeting the afternoon of the day before the conference starts
 =Next meeting scheduled for Tuesday, Jan. 24th, 2012 at 10am PST/1pm EST=

@@ Line 214: / Line 214: @@
 ==[https://sourceforge.net/tracker/?func=detail&aid=3474999&group_id=76834&atid=835555 lobe and tooth]==
 ''Post-poned until next week's discussion. Details moved to [[Items for future meetings]]''
 =Upcoming meetings and Presentations 2011/2012:=

@@ Line 129: / Line 129: @@
 ==[https://sourceforge.net/tracker/index.php?func=detail&aid=2972117&group_id=76834&atid=835555 spore (PO:0025017)]==
 Spore is_a cell, which is correct, but it is also a whole plant. Just as we changed the definition of [https://sourceforge.net/tracker/?func=detail&aid=3459493&group_id=76834&atid=835555 plant zygote] to reflect its dual nature, I suggest we change spore. Also suggest that we rename it plant spore, for consistency.
@@ Line 150: / Line 151: @@
 intersection of is_a gametophyte development stage, has_participant spore
 ==[https://sourceforge.net/tracker/?func=detail&aid=3469817&group_id=76834&atid=835555 plant spore dormant stage (PO:0025376)]==
@@ Line 160: / Line 163: @@
 Because plant spore stage is an XP of is_a gametophyte development stage and has_participant spore, this will be inferred to be is_a plant spore stage.
 ==[https://sourceforge.net/tracker/?func=detail&aid=3469817&group_id=76834&atid=835555 plant embryo dormant stage (PO:0025377)]==
@@ Line 171: / Line 176: @@
 Since plant embryo stage is an XP of is_a sporophyte development stage and has_participant plant embryo, this will be inferred to be is_a plant embryo stage.
-Also added seed dormant stage has_ part plant embryo dormant stage. Can't add the inverse part_of relation, because not all embryo dormancy occurs in seeds. '''Question for Barry or Chris:''' Is this the correct usage of part_of for development stages?
+Also added seed dormant stage has_ part plant embryo dormant stage. Can't add the inverse part_of relation, because not all embryo dormancy occurs in seeds. '''Question for Barry or Chris:''' Is this the correct usage of part_of for development stages? ''Yes.  Future RO/BFO will have different part_of relations for continuants and occurrents.''
 ==[https://sourceforge.net/tracker/?func=detail&aid=3474979&group_id=76834&atid=835555 leaf lamina (PO:0020039)]==
-Leaf lamina is defined as any lamina that is part of a leaf, so petiole lamina is a subtype of leaf lamina. At least week's meeting, we decided. That is how most people think of it.
+''May want to review definitions of lamina (PO:0025060) and leaf lamina. Others are okay.''
-We may want to make a parent term phyllome lamina, because we will eventually need to add terms for petal lamina, etc. Are there laminae in structures other than phyllomes?
+Leaf lamina is defined as any lamina that is part of a leaf, so petiole lamina is a subtype of leaf lamina. At least week's meeting, we decided that lamina should be defined exclusive of the petiole. That is how most people think of it.
 '''lamina (PO:0025060):''' A regional part of an anatomical structure that is enlarged through lateral growth.
@@ Line 189: / Line 204: @@
 Comment: A leaf lamina is usually dorsiventrally flattened, but may be flattened in a median plant (perpendicular to the axis) in the case of phyllodes (PO:0025335) or other ensiform leaves (PO:0025333).
@@ Line 194: / Line 213: @@
 ==[https://sourceforge.net/tracker/?func=detail&aid=3474999&group_id=76834&atid=835555 lobe and tooth]==
-''Post-poned until next week's discussion.''
+''Post-poned until next week's discussion. Details moved to [[Items for future meetings]]''
 Last week we added the term "sinus" and agreed to add the related terms for tooth and lobe, all part_of some margin.