Relation Ontology 2018: Difference between revisions
m (→Participants) |
mNo edit summary |
||
| Line 5: | Line 5: | ||
==Background== | ==Background== | ||
The first [https://www.bioontology.org/wiki/index.php/OntologyRelations Relation Ontology meeting], organized by Mike Bada, 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). | The first [https://www.bioontology.org/wiki/index.php/OntologyRelations 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. | 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. | ||
| Line 14: | Line 14: | ||
The goals of this meeting are: | 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. | *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. | *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. | |||
==Schedule: Wednesday, October 24, 2018== | ==Schedule: Wednesday, October 24, 2018== | ||
Revision as of 18:23, 31 May 2018
Date: October 24-25, 2018
Venue: SpringHill Suites Denver at Anschutz Medical Campus, Aurora, CO
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.
Schedule: Wednesday, October 24, 2018
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
