POC Conf. Call 9-04-12 - Revision history

Phismith: /* PRO-PO-GO meeting, ~May 2013 */

2012-10-12T14:57:04Z

PRO-PO-GO meeting, ~May 2013

Cooperl: /* PAG 2013, San Diego, CA; January 12-16, 2013 */

2012-09-06T15:55:25Z

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

Rwalls: /* Upper level term: 5 fruit formation stage (PO:0007042) */

2012-09-05T18:05:51Z

Upper level term: 5 fruit formation stage (PO:0007042)

Rwalls: /* Fruit development stages for whole plants */

2012-09-05T17:43:43Z

Fruit development stages for whole plants

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

2012-09-05T17:12:05Z

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

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

2012-09-05T16:48:45Z

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

Rwalls at 16:34, 5 September 2012

2012-09-05T16:34:21Z

Cooperl at 18:23, 4 September 2012

2012-09-04T18:23:14Z

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

2012-09-04T17:17:55Z

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

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

2012-09-04T17:13:31Z

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

@@ Line 360: / Line 360: @@
 ''PJ will check with DW about Gramene involvement''
-==PRO-PO-GO meeting, ~May 2013==
+==PRO-PO-GO meeting, May 15, 2013==
 Location: Buffalo, NY
@@ Line 377: / Line 377: @@
 PO Consortium members: Pankaj Jaiswal, Dennis Stevenson, Barry Smith (Buffalo) who else?
-GO Consortium members: Jane Lomax (EBI), Judith Blake (JAX), Alex Diehl (Buffalo) who else?
+GO Consortium members: Jane Lomax (EBI), Judith Blake (JAX), Alex Diehl (Buffalo), Chris Mungall (Berkeley) who else?
 PRO Consortium members: Cathy Wu, Alan Ruttenberg (Buffalo)
 =Next meeting scheduled for Tuesday, Sept 18th, 2012 at 10am PDT/1pm EDT=

← Older revision		Revision as of 15:55, 6 September 2012
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	* Can we offer something to entice the speakers, in addition to the $100 discount on registration offered by the conference?		* Can we offer something to entice the speakers, in addition to the $100 discount on registration offered by the conference?
		+
		+	* Need to submit list of speakers by November 1, 2012.

	''PJ will check with DW about Gramene involvement''		''PJ will check with DW about Gramene involvement''

@@ Line 54: / Line 54: @@
 ''Slightly modified definition: A sporophyte reproductive stage (PO:0007130) that begins with the initiation of the first fruit (PO:0009001) of a growing season and ends with the beginning of a whole plant fruit ripening stage (PO:0007010).''
-''Maybe refer to initiation of first fruit instead.''
+''Maybe refer to initiation of first fruit ripening, instead of fruit ripening stage?''
 ''Some discussion of this as a population measure: If you want to apply this to a population, you may choose the point when, e.g., 50% of the plants have initiated fruit. BS suggested that this should be defined for an individual plant, and have population terms defined separately.''

@@ Line 49: / Line 49: @@
 subset for angiosperms
 ===Upper level term: 6 ripening stage (PO:0007010)===
 current def.: Maturation of the fruit.
-"GO:ripening is defined as a type of senescence. Should the term ripening be used only for fleshy fruits? Fruit drying also probably involves cell death, so perhaps it is type of ripening as well.
+GO:ripening is defined as a type of senescence. Should the term ripening be used only for fleshy fruits? Fruit drying also probably involves cell death, so perhaps it is type of ripening as well.
 '''proposed new name and definition:'''
@@ Line 65: / Line 79: @@
 subset for angiosperms
 ===Subclasses of fruit formation stage of whole plant (PO:0007042)===
 ====FF.00 fruit size up to 10% stage (PO:0007032)====
@@ Line 79: / Line 113: @@
 comment: This stage may begin without fertilization or formation of a plant zygote in cases of parthenocarpy, apomixis, or other hormone-induced conditions. This terms is best used for plant with more or less synchronous fruit development and can only be used of the final size of the fruit is known. This stage occurs only once in the life of annual plants, but may occur once for each growing season in perennial plants.
 ====FF.01 fruit size 10 to 30% stage (PO:0007009)====
@@ Line 90: / Line 126: @@
 comment: This terms is best used for plant with more or less synchronous fruit development and can only be used of the final size of the fruit is known. This stage occurs only once in the life of annual plants, but may occur once for each growing season in perennial plants.
 ====FF.02 fruit size 30 to 50% stage (PO:0007029)====
@@ Line 101: / Line 139: @@
 comment: This terms is best used for plant with more or less synchronous fruit development and can only be used of the final size of the fruit is known. This stage occurs only once in the life of annual plants, but may occur once for each growing season in perennial plants.
 ====FF.03 fruit size 50 to 70% stage (PO:0007007)====
@@ Line 112: / Line 152: @@
 comment: This terms is best used for plant with more or less synchronous fruit development and can only be used of the final size of the fruit is known. This stage occurs only once in the life of annual plants, but may occur once for each growing season in perennial plants.
 ====FF.04 fruit size 70% to final size stage (PO:0007027)====
@@ Line 125: / Line 167: @@
 related synonyms: BBCH principal growth stage 75; BBCH principal growth stage 79
 ====New synonyms for grapes====
@@ Line 137: / Line 181: @@
 ===Subclasses of fruit ripening stage of whole plant (PO:0007010)===
 The current definitions are very vague and circular! For now, proposed just rewording them so it is clear that they refer to whole plants, but we will need to develop some more specific boundaries for these stages.

← Older revision		Revision as of 17:12, 5 September 2012
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	''List of plant diseases is being worked on. Participants are familiar with the disease so it is easy to develop a list of them. Biggest limitation with disease ontology is a good taxonomy for the causal organisms.''		''List of plant diseases is being worked on. Participants are familiar with the disease so it is easy to develop a list of them. Biggest limitation with disease ontology is a good taxonomy for the causal organisms.''
		+
		+	''Link to TO paper on CROP workshop page.''

	==[http://phenotypercn.org/ Phenotype RCN meeting], Oct 26-29th 2012==		==[http://phenotypercn.org/ Phenotype RCN meeting], Oct 26-29th 2012==

@@ Line 255: / Line 255: @@
 The focus of the workshop will be on mostly development stages and traits for the crop plants
@@ Line 284: / Line 290: @@
 * to be developed by CROP group
 ==[http://phenotypercn.org/ Phenotype RCN meeting], Oct 26-29th 2012==

@@ Line 3: / Line 3: @@
 In attendance:
-POC members:
+POC members: Laurel Cooper (OSU), Ramona Walls (NYBG), Pankaj Jaiswal (OSU), Marie Alejandra Gandolfo (Cornell), Barry Smith (University at Buffalo, NY)
-Absent:
+Absent:Dennis Stevenson (NYBG), Chris Mungall (Lawrence Berkeley National Lab), Justin Elser (OSU), Justin Preece (OSU)
@@ Line 11: / Line 11: @@
-Any changes or corrections (additions/deletions, etc) needed in the minutes from the [[POC_Conf._Call_8-14-12]]?
+Any changes or corrections (additions/deletions, etc) needed in the minutes from the [[POC_Conf._Call_8-14-12]]? ''No additions, deletions, or changes.''
 Back to [[POC Meetings Minutes]]
@@ Line 22: / Line 22: @@
 =Update from Cornell=
-Added 25 more slides and 500 more images to the CuPAC database
+Added 25 more slides and 500 more images to the CUPAC database
 =Fruit development stages for whole plants=
@@ Line 35: / Line 35: @@
 We also have requests for new synonyms for these stages for grape.
-Also, we will need to make similar changes to 6 ripening stage (PO:0007010), 4 flowering stage (PO:0007016), and 3 inflorescence detectable stage (PO:0007047), and their subclasses. (see items for future meetings)
+Also, we will need to make similar changes to 6 ripening stage (PO:0007010), 4 flowering stage (PO:0007016), and 3 inflorescence detectable stage (PO:0007047), and their subclasses. (see [[Items_for_future_meetings#Sporophyte_reproductive_stages]])
 ===Upper level term: 5 fruit formation stage (PO:0007042)===

← Older revision		Revision as of 18:23, 4 September 2012
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	Back to [[POC Meetings Minutes]]		Back to [[POC Meetings Minutes]]
		+
		+
		+	Streaming recording link: https://ontology.webex.com/ontology/ldr.php?AT=pb&SP=MC&rID=67965547&rKey=03f922d906861840
		+
		+	Download recording link: https://ontology.webex.com/ontology/lsr.php?AT=dw&SP=MC&rID=67965547&rKey=1cae0653c167aeb7

@@ Line 253: / Line 253: @@
 '''CROP'''
 PO*
@@ Line 267: / Line 268: @@
 PATO
-Taxonomy
+Taxonomy- NCBI has most of the plants, causal organisms not sufficient
 GAZ