Difference between revisions of "The Future of the Foundational Model of Anatomy"
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Cornelius) | Cornelius) | ||
:11:00 Requirements brought in from OBO Foundry/Semweb (Alan) | :11:00 Requirements brought in from OBO Foundry/Semweb (Alan) | ||
− | :11:15 | + | :11:15 The FMA and its ontological commitment(s) (Stefan) |
'''Review and discussion of current approaches''' | '''Review and discussion of current approaches''' | ||
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:3:15 Who's using FMA, and how? - Onard Mejino | :3:15 Who's using FMA, and how? - Onard Mejino | ||
:3:45 Presentation of specific challenges - Onard Mejino | :3:45 Presentation of specific challenges - Onard Mejino | ||
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:4:15 Single/Multiple inheritance and inferred hierarchies | :4:15 Single/Multiple inheritance and inferred hierarchies | ||
− | Problem: Single inheritance hierarchy prohibits multi-supertype | + | Problem: Single inheritance hierarchy prohibits multi-supertype assignments. |
− | assignments. | ||
Examples: | Examples: | ||
− | - primary incisor tooth can be a subtype of either incisor | + | - primary incisor tooth can be a subtype of either incisor tooth or primary tooth |
− | tooth or primary tooth | + | - right female breast can be a subtype of female breast or right breast |
− | - right female breast can be a subtype of female breast or | + | - proximal phalanx of thumb can be a subtype of either phalanx of thumb or proximal phalanx of finger |
− | right breast | + | - question: can OWL automatically infer one of the supertypes in the inferred hierarchy |
− | - proximal phalanx of thumb can be a subtype of either | ||
− | phalanx of thumb or proximal phalanx of finger | ||
− | - question: can OWL automatically infer one of the supertypes | ||
− | in the inferred hierarchy | ||
'''Friday, November 13''' | '''Friday, November 13''' | ||
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Biatrial part and biventricular part | Biatrial part and biventricular part | ||
T7, T8, T9, T10 parts | T7, T8, T9, T10 parts | ||
− | These are all valid regional parts | + | These are all valid regional parts |
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:9:45 Review of relations and their usage. | :9:45 Review of relations and their usage. | ||
- Axiomization | - Axiomization | ||
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:2:00 Technical methods to achieve interoperability and orthogonality: | :2:00 Technical methods to achieve interoperability and orthogonality: | ||
:2:10 OWL Modularity – Uli Sattler | :2:10 OWL Modularity – Uli Sattler | ||
− | :2:20 Ontology views – Todd Detwiler | + | :2:20 Ontology views – Todd Detwiler |
− | :2:30 Cross-references and semantic web linking methods – Alan | + | :2:30 Cross-references and semantic web linking methods – Alan Ruttenberg |
− | Ruttenberg | ||
:3:00 Break | :3:00 Break | ||
:3:30-5:00 Discussion, action items, and future plans – Jim Brinkley, Alan Ruttenberg, Olivier Bodenreider | :3:30-5:00 Discussion, action items, and future plans – Jim Brinkley, Alan Ruttenberg, Olivier Bodenreider | ||
:5:00 Closing remarks Cornelius Rosse, Mark Musen, Barry Smith | :5:00 Closing remarks Cornelius Rosse, Mark Musen, Barry Smith |
Latest revision as of 09:20, 14 February 2012
Date: November 12-13, 2009
Venue: Stanford University
Organizers: Onard Mejino, Natasha Noy, Alan Ruttenberg
Agenda
Thursday, November 12
Preliminaries
- 8:30 Welcome - Mark Musen, Barry Smith, Cornelius Rosse
- 9:00 Short introductions by participants
- 9:15 Objectives of the FMA group for the meeting - Jim Brinkley
- 9:30 Presentation by FMA group explaining semantics, deficiencies in
current representation, questions and targets for OWL (Onard and Cornelius)
- 11:00 Requirements brought in from OBO Foundry/Semweb (Alan)
- 11:15 The FMA and its ontological commitment(s) (Stefan)
Review and discussion of current approaches
- 11:30 Current approaches to translation - Christine Golbreich
- 12:05 Current approaches to translation - Natasha Noy
- 12:40 Lunch
- 1:30 Current approaches to translation - Chris Mungall
- 2:10 Introduction to OWL 2 and its features - Uli Sattler
- 2:50 Break
Details
- 3:15 Who's using FMA, and how? - Onard Mejino
- 3:45 Presentation of specific challenges - Onard Mejino
- 4:15 Single/Multiple inheritance and inferred hierarchies
Problem: Single inheritance hierarchy prohibits multi-supertype assignments. Examples: - primary incisor tooth can be a subtype of either incisor tooth or primary tooth - right female breast can be a subtype of female breast or right breast - proximal phalanx of thumb can be a subtype of either phalanx of thumb or proximal phalanx of finger - question: can OWL automatically infer one of the supertypes in the inferred hierarchy
Friday, November 13
- 9:00
Representation of different contexts using the same relation.
Examples: - prostate can be regionally subdivided into different parts using different contexts; a. classically into anterior lobe, median lobe, right lateral lobe, left lateral lobe and posterior lobe b. histologically into peripheral zone, central zone, transition zone, and peri-urethral zone c. surgically into right median lobe, left median lobe, right lateral lobe, left lateral lobe, right dorsal lobe and left dorsal lobe - heart can subdivided into different contexts: Right side and left side Biatrial part and biventricular part T7, T8, T9, T10 parts These are all valid regional parts
- 9:45 Review of relations and their usage.
- Axiomization - Use of Attributed/reified relationships - Are they necessary? - If necessary how to represent them in OWL
- 10:30 Break
- 11:00 Post-Coordination
- 11:45 What can be inferred? Quality assurance - error and consistency checks
12:30 Lunch
Moving forward
- 1:30 Review of goals and outlines of possible solutions - Jim Brinkley
- 2:00 Technical methods to achieve interoperability and orthogonality:
- 2:10 OWL Modularity – Uli Sattler
- 2:20 Ontology views – Todd Detwiler
- 2:30 Cross-references and semantic web linking methods – Alan Ruttenberg
- 3:00 Break
- 3:30-5:00 Discussion, action items, and future plans – Jim Brinkley, Alan Ruttenberg, Olivier Bodenreider
- 5:00 Closing remarks Cornelius Rosse, Mark Musen, Barry Smith