May 2nd, 2017 Ontology Working Group Meeting: Difference between revisions

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=Planteome Ontology WG Zoom Meeting=
=Planteome Ontology WG Zoom Meeting=
* Date: Tuesday April 25th, 2017
* Date: Tuesday May 2nd, 2017
* Time: 8:15am PDT (GMT-7)
* Time: 8:15am PDT (GMT-7)


* Connection details:
* Connection details: Join from PC, Mac, Linux, iOS or Android: https://zoom.us/j/417836474
* Meeting Recordings:
** [[File:Ontology WG Meeting audio 5-2-17.m4a|thumb|Ontology WG Meeting audio 5-2-17]]
** [[File:Ontology WG Meeting video 5-2-17.mp4|thumb|Ontology WG Meeting video 5-2-17]]
 
=Agenda=
==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/'''
** Link to [https://docs.google.com/document/d/1KYi1f53KCmPsLDBnz8fIosg4htkPoEHjeXZtj-QedgM/edit?usp=sharing Planteome Noctua SOP] (In progress)
 
* Items mentioned during call:
** Need list of people attending as they need to be added to the users.yaml file?
** CM will give an overview and intro
** Will 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
 
==Updates==
* Luke and George:
** Development of AberOwl: http://aber-owl.net
*** [[https://jbiomedsem.biomedcentral.com/articles/10.1186/s13326-016-0090-0| Slater et al, Journal of Biomedical Semantics (2016)]]
** provides automated reasoning-based access to all accessible and consistent ontologies in BioPortal
 
 
* Ontology of Plant Stress (AM)- tabled for next meeting
 
== 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=
== 2017 Gene Ontology Consortium Meeting, June 1-5th, 2017, Corvallis ==
* [https://sites.google.com/view/goc2017 GO Meeting Corvallis]
* [https://docs.google.com/forms/d/1cJWCL0mL3X3rXrNsIcmLtkAf9et6TfhyYbHX9ouLwZs/edit Registration]
* [https://docs.google.com/forms/d/1F9BUTwzPqeyYQW81BXY1Qfj63OwCwWj9e0zC6sTt2jk/edit Travel plans]
 
* 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==
* Links: http://plantbiology.aspb.org/
 
* 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!
 
== [http://www.ibc2017.cn 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 [http://www.ibc2017.cn/Symposia/ 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

Latest revision as of 18:54, 9 May 2017

Planteome Ontology WG Zoom Meeting

  • Date: Tuesday May 2nd, 2017
  • Time: 8:15am PDT (GMT-7)

Agenda

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/
  • Items mentioned during call:
    • Need list of people attending as they need to be added to the users.yaml file?
    • CM will give an overview and intro
    • Will 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

Updates


  • Ontology of Plant Stress (AM)- tabled for next meeting

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

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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