Relation Ontology 2018

From NCOR Wiki
Revision as of 16:28, 1 June 2018 by Phismith (talk | contribs)
Jump to navigationJump to search

Date: October 24-25, 2018

Venue: SpringHill Suites Denver at Anschutz Medical Campus, Aurora, CO (details on special rates will follow)

Background

The first Relation Ontology meeting, organized by Mike Bada, Larry Hunter, Chris Mungall and Barry Smith, was held in Denver in 2008. Since then the Relation Ontology has languished. Different ontology developers and users employ locally curated relations that are not harmonized across ontologies. The result is inconsistency and failure of comparability, causing serious problems for example in the logical definitions of terms. There are differences of opinion about whether relations (or some relations, especially parthood) should be temporally scoped. There are other issues that arise in various communities of use (e.g. PRO, Monarch, text miners).

Through a series of preparatory phone calls and then the two day meeting in October, we propose to make progress on these issues. Your participation, including in defining the goals and tasks of the group, would be welcome.

This ten-year anniversary meeting is designed to draw on the lessons learned in the intervening years in order to create a core Relation Ontology with a firm logical foundation that will enjoy widespread acceptance. The meeting, organized by Larry Hunter and Barry Smith, is part of the series of meetings organized by the Protein Ontology Consortium. Groundwork for the meeting will be laid in a series of pre-meetings, both online and in the form of teleconferences. Those wishing to participate in these pre-meetings and/or in the face-to-face meeting in Denver should contact Barry Smith.

Goals

The goals of this meeting are:

  • 1. To review the current treatment of relations in the OBO Foundry and to establish a strategy to establish the Relation Ontology on a firmer footing, with a core, consisting of the relations used in a wide range of ontologies, and a well-curated collection of modules extending the core, wherever possible using the technology of short-cut relations.
  • 2. Harmonizing the many alternative sets of relations used by various OBO ontologies.
  • 3. Providing a set of paradigm RO use cases, for example:
providing a set of relations sufficient for expressing the relations among OBO terms denoted by statements in biomedical journal articles.
providing a set of relations sufficient for capturing the relations between PRO terms and terms in other OBO ontologies.

Very Rough Draft Schedule: Wednesday, October 24, 2018

Schedule will evolve in light of results of teleconference pre-meetings

Introductory Session

9:00 Cathy Wu: "Introduction"
9:15 Barry Smith: "What is wrong with the Relation Ontology"
10:00 TBD
10:45 Break
11:00 Larry Hunter: "Relation Ontology 2018: Cross-ontology harmonization and new use cases”
11:45 Alan Ruttenberg: "OWL, Relations and Time"
12:30 Lunch

TBD

Chair:

13:30 TBD
15:00 Break
15:15 TBD
18:00 Working dinner

Schedule: Thursday, October 25, 2018

TBD

Chair:

9:00 TBD
10:30 Break
10:45 TBD
12:15 Lunch

13:00 TBD

16:00 Close

Participants

Cecilia Arighi (Delaware / PRO)
Mike Bada (Denver)?
Judith Blake (JAX)
Chuming Chen (Delaware)?
Julie Cowart (Delaware)?
Dahdul Wasila (USD)?
Peter d'Eustachio (NYU)?
Alexander Diehl (Buffalo)
Mary Dolan (JAX)?
Harold Drabkin (JAX)?
Melissa Haendel (Oregon)
David Hill (JAX)?
William Hogan (Gainesville)
Robert Hoehndorf (KAUST)
Larry Hunter (Denver)
Chris Mungall (LBNL)
Darren Natale (Georgetown)
Li Ni (JAX)?
David Osumi-Sutherland (EBI)?
Karen Ross (Delaware)?
Alan Ruttenberg (Buffalo)
Cynthia Smith (JAX)
Barry Smith (Buffalo)
Kimberley VanAuken (CalTech)?
Laurens Wilming (JAX)?
Cathy Wu (Delaware / PRO)

Please contact Barry Smith for further information.

Sponsors

The Protein Ontology Consortium
University of Colorado Knowledge-Based Biomedical Data Science Program
National Center for Ontological Research