May 9th, 2017 Ontology Working Group Meeting: Difference between revisions

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=Planteome Ontology WG Zoom Meeting=
=Planteome Ontology WG Zoom Meeting=
* Date: Tuesday May 2nd, 2017
* Date: Tuesday May 9th, 2017
* Time: 8:15am PDT (GMT-7)
* Time: 8:15am PDT (GMT-7)


* Connection details: Join from PC, Mac, Linux, iOS or Android: https://zoom.us/j/157471645
* Connection details: Join from PC, Mac, Linux, iOS or Android: https://zoom.us/j/157471645
* Meeting Recordings:
* Meeting Recordings:
** [[File:Ontology WG Meeting audio 5-9-17.m4a|thumb|Ontology WG Meeting audio 5-9-17]]
** [[File:Ontology WG Meeting video 5-9-17.mp4|thumb|Ontology WG Meeting video 5-9-17]]


=Agenda=
=Agenda=
==Updates from NYBG==
* DWS out till May 15th
* Brandon will be leaving project as of May 19th, and Dario will be leaving on May 12th
** Brandon working on Fruit types paper (and also one for periderm issues?)
** Dario has been generating images for the fruit types- will add those to the dropbox
** Ownership of Google docs needs to be transferred to Laurel
* Progress on the [https://docs.google.com/document/d/1rxh2KDz1-2skWkY75sIPTr2LBZ-XgHcKuEqnRNNifwA/edit?usp=sharing Branch/Axis downstream terms]
** DC- these have been addressed, can make the edits in the PO?  - '' these probably need to be reviewed together"
** Revisions to spikelet pedicel (Link to Gdoc: [https://docs.google.com/document/d/1GeMKf0s-M58355hakqeN7Aaf72kHvGaTubfwOh9Pf9o/edit?usp=sharing Pedicel and Related Terms])
==Ontology of Plant Stress (AM)==
* [[File:Brief OOPS overview AM 5-9-17.pdf|thumbnail|Brief_OOPS_overview_AM_5-9-17.pdf ]]
==Progress on the Agro Ontology- (MAL)==
* Tabled for next meeting
==Planteome Noctua==
==Planteome Noctua==
* In preparation for the Noctua workshop on June 4th, we will review the current version of the Planteome Noctua and test out features and functionalities.
* In preparation for the Noctua workshop on June 4th, we will review the current version of the Planteome Noctua and test out features and functionalities.
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** Link to [https://docs.google.com/document/d/1KYi1f53KCmPsLDBnz8fIosg4htkPoEHjeXZtj-QedgM/edit?usp=sharing Planteome Noctua SOP] (In progress)
** Link to [https://docs.google.com/document/d/1KYi1f53KCmPsLDBnz8fIosg4htkPoEHjeXZtj-QedgM/edit?usp=sharing Planteome Noctua SOP] (In progress)


* Items mentioned during call:
=== Planteome Noctua Issues===
** TBA...
** Need list of people attending as they need to be added to the users.yaml file?
 
** CM will give an overview and intro
==Updates==
** Will we use the Planteome version for demo, and annotate example from plants?
* Updates from NYBG:
** Need to include agro and EO?
** Brandon will be leaving project as of May 19th, and Dario will be leaving on May 12th.
** Attendees should be given a couple of papers before hand to read- specifc pathways
**  
** Justin will work on creating an OBO file with gene names for rice and Arabidopsis
 
* Progress on the Agro Ontology- (MAL)
 
* Ontology of Plant Stress (AM)
 
== Current work going on in PO==
Link to pedicel document: https://docs.google.com/document/d/1GeMKf0s-M58355hakqeN7Aaf72kHvGaTubfwOh9Pf9o/edit?usp=sharing


= Upcoming Meetings and Workshops=
= Upcoming Meetings and Workshops=

Latest revision as of 22:36, 9 May 2017

Planteome Ontology WG Zoom Meeting

  • Date: Tuesday May 9th, 2017
  • Time: 8:15am PDT (GMT-7)


Agenda

Updates from NYBG

  • DWS out till May 15th
  • Brandon will be leaving project as of May 19th, and Dario will be leaving on May 12th
    • Brandon working on Fruit types paper (and also one for periderm issues?)
    • Dario has been generating images for the fruit types- will add those to the dropbox
    • Ownership of Google docs needs to be transferred to Laurel
  • Progress on the Branch/Axis downstream terms
    • DC- these have been addressed, can make the edits in the PO? - these probably need to be reviewed together"

Ontology of Plant Stress (AM)

Progress on the Agro Ontology- (MAL)

  • Tabled for next meeting

Planteome Noctua

  • In preparation for the Noctua workshop on June 4th, we will review the current version of the Planteome Noctua and test out features and functionalities.
  • Demo and test of Planteome Noctua instance: http://noctua-dev.planteome.org/

Planteome Noctua Issues

    • Need list of people attending as they need to be added to the users.yaml file?
    • CM will give an overview and intro
    • Will we use the Planteome version for demo, and annotate example from plants?
    • Need to include agro and EO?
    • Attendees should be given a couple of papers before hand to read- specifc pathways
    • Justin will work on creating an OBO file with gene names for rice and Arabidopsis

Upcoming Meetings and Workshops

2017 Gene Ontology Consortium Meeting, June 1-5th, 2017, Corvallis

  • Dates: June 1-5, 2017 (Details)
    • Arrive (May 31) View travel directions
    • GOC meeting (June 1-3)
    • Noctua gene annotation jamboree (June 4)
    • Reactome Pathway curation jamboree (June 5)
    • Depart (June 5 late evening / June 6 anytime)

Plant Biology 2017, June 24th-28th, Honolulu, Hawaii

  • Important deadlines:
    • May 24, 2017: Deadline for submission of abstracts to be included in the online program book and to receive a poster number.
    • May 27, 2017: Deadline for discount hotel rates. (Please note: Our discounted room block may fill up long before this deadline.)
    • June 12, 2017: Final deadline for Plant Biology 2017 abstract submissions.
    • June 12, 2017: Deadline for standard registration rates for Plant Biology 2017 and iMOSS 2017.
    • June 24–28, 2017: Onsite registration during Plant Biology 2017!

XIX International Botanical Congress, July 23-29, 2017, Shenzhen, China

  • Workshop proposal accepted-
  • T5-06:Ontologizing botanical knowledge (two sessions)
    • Organizer: Hong Cui (University of Arizona, USA)
    • James Macklin (Agriculture Agri-Food Canada, Canada)
    • Pankaj Jaiswal (Oregon State University, USA)
  • T5-18: Bioinformatics resources for comparative functional and phylogenetic analysis of plant genomes, pathways and diversity
    • Organizer: Pankaj Jaiswal (Oregon State University, USA)
    • Sushma Naithani (Oregon State University, USA)
  • Deadline for the abstract submission for oral presentations has been extended for 39 of the 212 general symposia where one or a few speaker slots are available
  • New deadline: February 15, 2017 for those 39 symposia and for posters only
  • Abstract submitted?

ICBO 2017, Sept 12th-15th, 2017

  • Newcastle, GB
  • http://icbo.buffalo.edu/
  • Important dates:
    • Mar 29, 2017: Workshops and tutorials proposals submission deadline
    • Apr 19, 2017: Notification of acceptance of workshops and tutorials
    • Jun 02, 2017: Paper and Poster Deadline
    • Jun 16, 2017: Paper Reviews Due
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