Thursday Feb 6th, 2015 - Revision history

Cooperl: /* Georgios Gkoutos, University of Aberystwyth, UK: */

2015-05-09T00:25:38Z

Georgios Gkoutos, University of Aberystwyth, UK:

← Older revision		Revision as of 00:25, 9 May 2015
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	* Roles- As laid out in the Phoebe (ERA-CAPs) and cROP proposal		* Roles- As laid out in the Phoebe (ERA-CAPs) and cROP proposal
	* Create logical definitions for plant phenotype ontology		* Create logical definitions for plant phenotype ontology
	* Expand Plant PhenomeNet, along with Phenotype RCN		* Expand Plant PhenomeNet, along with Phenotype RCN and integrate it into the Planteome interface
	** Developed out of http://phenomebrowser.net/index.html		** Developed out of http://phenomebrowser.net/index.html
	* Contribute to expanding the reference ontologies as need		* Contribute to expanding the reference ontologies as need

Cooperl at 23:45, 20 April 2015

2015-04-20T23:45:25Z

← Older revision		Revision as of 23:45, 20 April 2015
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	=Planteome All-Hands Monthly Meeting- Thursday Feb 6th, 2015=		=Planteome All-Hands Monthly Meeting- Thursday Feb 6th, 2015=
	Who: PJ, EA, LC, JE, JP, DWS, GG, EZ, BS; Not available: ST, CM, JD		Who: PJ, EA, LC, JE, JP, DWS, GG, EZ, BS; Not available: ST, CM, JD

			Link to audio recording: [[File:Planteome all 2-5-15.m4a\|thumbnail\|Planteome all 2-5-15.m4a]]

	== A. Introductions, as some people have not met yet.==		== A. Introductions, as some people have not met yet.==

Phismith: /* Barry Smith, University at Buffalo */

2015-02-15T17:05:21Z

Barry Smith, University at Buffalo

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	===Barry Smith, University at Buffalo ===		===Barry Smith, University at Buffalo ===
	* ~~Head~~ of the OBO Foundry, Ontology Consultant		* Member of editorial board of the OBO Foundry, Ontology Consultant
	* Guidance on ontology development, consistent structure for PO and can be extended to other ontologies		* Guidance on ontology development, consistent structure for PO and can be extended to other ontologies
	* Setting standards for ~~ontologies~~		* Setting standards and identifying and disseminating best practices for ontology development and use
			* [http://ontology.buffalo.edu/smith Website]

	===Georgios Gkoutos, University of Aberystwyth, UK: ===		===Georgios Gkoutos, University of Aberystwyth, UK: ===

Cooperl: /* E. Update from Ontologies Working group: */

2015-02-09T17:07:53Z

E. Update from Ontologies Working group:

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	* BS can look over the TO and provide guidance as to the structure-		* BS can look over the TO and provide guidance as to the structure-
	**Comments from email, after the call:

	* EA met with Ruaraidh Sackville-Hamilton (Head of Genetic Resources, IRRI)- They are working on updating the rice trait dictionary and they are interested in making sure the terms are cross-referenced with the TO terms.		* EA met with Ruaraidh Sackville-Hamilton (Head of Genetic Resources, IRRI)- They are working on updating the rice trait dictionary and they are interested in making sure the terms are cross-referenced with the TO terms.

Cooperl: /* A. Introductions, as some people have not met yet. */

2015-02-09T16:52:47Z

A. Introductions, as some people have not met yet.

← Older revision		Revision as of 16:52, 9 February 2015
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	===Georgios Gkoutos, University of Aberystwyth, UK: ===		===Georgios Gkoutos, University of Aberystwyth, UK: ===
	* Roles- As laid out in the ~~proposal, ''~~(~~Fibi? was this referring to the~~ ERA-CAPs proposal~~??)''~~		* Roles- As laid out in the Phoebe (ERA-CAPs) and cROP proposal
	* ~~create~~ logical definitions for plant phenotype ontology		* Create logical definitions for plant phenotype ontology
	* Expand Plant ~~Phenoment~~ , along with Phenotype RCN		* Expand Plant PhenomeNet, along with Phenotype RCN
	** Developed out of http://phenomebrowser.net/index.html		** Developed out of http://phenomebrowser.net/index.html
	* Contribute to expanding the reference ontologies as need		* Contribute to expanding the reference ontologies as need

Cooperl: /* F. Position Paper or "White Paper" */

2015-02-09T04:19:08Z

F. Position Paper or "White Paper"

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	Discussion:		===Discussion:===
	This could be another place; http://currents.plos.org/treeoflife/		* Nature's Scientific Data is calling for data descriptors/paper on plant phenotype: http://blogs.nature.com/scientificdata/2015/01/30/call-for-submissions-describing-plant-phenotype-data
			* This could be another place; http://currents.plos.org/treeoflife/
	See the related paper on the site: http://currents.plos.org/treeoflife/article/next-generation-phenomics-for-the-tree-of-life/		* See the related paper on the site: http://currents.plos.org/treeoflife/article/next-generation-phenomics-for-the-tree-of-life/

Cooperl: /* F. Position Paper or "White Paper" */

2015-02-09T04:16:19Z

F. Position Paper or "White Paper"

← Older revision		Revision as of 04:16, 9 February 2015
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	Discussion:		Discussion:
	This could be another place; http://currents.plos.org/treeoflife/		This could be another place; http://currents.plos.org/treeoflife/

	See the related paper on the site: http://currents.plos.org/treeoflife/article/next-generation-phenomics-for-the-tree-of-life/		See the related paper on the site: http://currents.plos.org/treeoflife/article/next-generation-phenomics-for-the-tree-of-life/

Cooperl: /* F. Position Paper or "White Paper" */

2015-02-09T04:16:06Z

F. Position Paper or "White Paper"

← Older revision		Revision as of 04:16, 9 February 2015
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	* Any evaluated characteristic of an entity can considered a phenotype		* Any evaluated characteristic of an entity can considered a phenotype


			Discussion:
			This could be another place; http://currents.plos.org/treeoflife/
	See the related paper on the site: http://currents.plos.org/treeoflife/article/next-generation-phenomics-for-the-tree-of-life/		See the related paper on the site: http://currents.plos.org/treeoflife/article/next-generation-phenomics-for-the-tree-of-life/

Cooperl: /* F. Position Paper or "White Paper" */

2015-02-09T04:15:18Z

F. Position Paper or "White Paper"

← Older revision		Revision as of 04:15, 9 February 2015
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	* What level of phenotypes are we looking at: molecular aspects, function, processes, location, etc		* What level of phenotypes are we looking at: molecular aspects, function, processes, location, etc
	* Any evaluated characteristic of an entity can considered a phenotype		* Any evaluated characteristic of an entity can considered a phenotype

			See the related paper on the site: http://currents.plos.org/treeoflife/article/next-generation-phenomics-for-the-tree-of-life/

Cooperl: /* E. Update from Ontologies Working group: */

2015-02-09T01:35:08Z

E. Update from Ontologies Working group:

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	[https://hr4u.bioversity.cgiar.org/recruitment/Attachments%5CVA_Post%20Doc_CropOntology_NSF_MPL_Final.pdf VA_PostDoc_CropOntology_NSF_MPL_Final.pdf]		[https://hr4u.bioversity.cgiar.org/recruitment/Attachments%5CVA_Post%20Doc_CropOntology_NSF_MPL_Final.pdf VA_PostDoc_CropOntology_NSF_MPL_Final.pdf]

	* PJ: We can help advertise the position advertisement- by posting on Planteome.org and the PO Facebook page. EA: Bioversity HR does not want to advertise too widely in order to avoid too many Cvs to be screened between now and end of February as they are quite busy at the moment for the Bioversity programme restructuring, due end of March, so please just advertise on your web site and specialized ones.		* PJ: We can help advertise the position advertisement- by posting on Planteome.org and the PO Facebook page.
			** EA: Bioversity HR does not want to advertise too widely in order to avoid too many Cvs to be screened between now and end of February as they are quite busy at the moment for the Bioversity programme restructuring, due end of March, so please just advertise on your web site and specialized ones.

	* First steps for Ontologies WG is to decide on which of the species-specific Crop Ontologies we will focus on initially. Previously we had discussed wheat, rice and maize as the initial targets.		* First steps for Ontologies WG is to decide on which of the species-specific Crop Ontologies we will focus on initially. Previously we had discussed wheat, rice and maize as the initial targets.