Workshop on Ontology of Diseases

General Information

The National Center for Biomedical Ontology will host a two-day workshop focused on the ontology of diseases on November 6-7, 2006 in Baltimore, MD.

The goals of the workshop are to promote sound, principles-based ontology construction and to raise the level of cooperation between people who work in this and related fields.

Participation

PLEASE NOTE THAT REGISTRATION IS CLOSED.

If you have any suggestions or questions about the workshop, please don't hesitate to contact Fabian Neuhaus.

Preliminary Agenda

Monday November 6

Morning

• 8.30am Registration and Continental Breakfast
• 9am Participant Introductions

Session I: Disease Ontologies - Where We Are (Moderator: Rex Chisholm)

• 9.15am Rex Chisholm: OBO Disease Ontology
• 10.15am Coffee
• 10.30am Winston Hide or Oliver Hofmann: eVOC Ontologies
• 11.30am Coffee
• 11.45am Kent Spackman: SNOMED CT

Afternoon

• 1.00pm Lunch

Session II: What is a Disease? (Moderator: Barry Smith)

• 2.00pm What a Disease Ontology is For
• 3.30pm Coffee
• 4.00pm How to Build a Disease Ontology

Tuesday November 7

Morning

• 8.30am Continental Breakfast

Session III: Problems of Disease Ontologies (Moderator: Werner Ceusters)

• 9am TBA
• 10.30am Coffee
• 11am TBA

Afternoon

• 1pm Lunch

Session IV: The Next Steps: Moderated Discussion (Moderatrix: Suzanna Lewis)

• 2.00pm The Next Steps
• 3.30pm
• 4.00pm Strategy Session

Participants

Carol Bean -– National Center for Research Resources, National Institutes of Health, U.S.A

Olivier Bodenreider -– National Library of Medicine, U.S.A

Werner Ceusters -– ECOR, Saarland University, Germany

Rex L. Chisholm -– Center for Genetic Medicine, Northwestern University, U.S.A

Christopher G. Chute -– NCBO, Mayo Clinic College of Medicine, U.S.A

Elaine Collier -– National Center for Research Resources, National Institutes of Health, U.S.A

Lindsay G. Cowell -– Center for Computational Immunology, Duke University, U.S.A

Jana T. Eppig -– The Jackson Laboratory, U.S.A

Yong Gao -– Massachusetts General Hospital, Harvard Medical School, U.S.A

Louis J. Goldberg -– Oral Biology, University at Buffalo, U.S.A

Peter Good -– National Human Genome Research Institute, U.S.A

Jeffrey S/ Grethe -- University of San Diego

Kristel Hackett -– MGH Laboratory of Computer Science, U.S.A

Frank Hartel -– National Cancer Institute, National Institutes of Health, U.S.A

Winston Hide -– SANBI, University of the Western Cape, South Africa

Oliver Hofmann -– SANBI, University of the Western Cape, South Africa

Ingvar Johansson -– IFOMIS, Saarland University, Germany

Waclaw Kusnierczyk -- Norwegian University of Science and Technology, Trondheim

Dirk Lanzerath -– German Reference Centre for Ethics in the Life Sciences, Germany

Suzanna Lewis -– NCBO, Lawrence Berkeley National Laboratory, U.S.A

Jose (Onard) Mejino -– Structural Informatics Group, University of Washington, U.S.A

Chris Mungall -– NCBO, Lawrence Berkeley National Laboratory, U.S.A

Fabian Neuhaus -– NCBO, University at Buffalo, U.S.A

Alan L. Rector -- Computer Science, University of Manchester, U.K.

Richard H. Scheuermann -– Pathology, U.T. Southwestern Medical Center, U.S.A

Lynn Schriml -- The Institute for Genomic Research, Rockville MD, U.S.A.

Stefan Schulz -– Medical Informatics, Freiburg University Hospital, Germany

Kent A. Spackman -– Medical Informatics, Oregon Health & Science University, U.S.A

Barry Smith -– NCBO, University at Buffalo, U.S.A

Nicole Washington -- NCBO, Lawrence Berkeley National Labs., Berkeley CA, U.S.A.

Monte Westerfield -– Institute of Neuroscience, University of Oregon, U.S.A

Owen White -– The Institute for Genomic Research, Rockville MD, U.S.A

Neil Williams -– Philosophy, University at Buffalo, U.S.A

Venue

Inn at the Colonnade 4 West University Parkway Baltimore, Maryland 21218 Telephone: +1 410 235 5400 Fax: +1 410 235 5572

The Inn at the Colonnade is located across from Johns Hopkins University less than four miles from Baltimore's CBD and historic Inner Harbor, and only 20 minutes from BWI International Airport.

A block of rooms have been reserved for those Workshop participants and attendees wishing to stay at the Inn at the Colonnade. Reservations may be made by calling 1-800-222-TREE. When making reservations, workshop participants and attendees are asked to identify themselves as being a member of the NCBO group. All reservations must be guaranteed for late arrival by charging to a major credit card. Workshop participants and attendees are encouraged to make room reservations no later than 10/15/06. After 10/15/06, the Inn at the Colonnade may offer unused rooms held in the NCBO block to other customers. Reservations requested by Workshop participants and attendees after 10/15/06 will be accepted by the Inn at the Colonnade based upon availability and prevailing rates.

Links and Literature

The workshop is associated with FOIS 2006 and KRMed 2006.

OBO disease ontology

eVOC ontologies

SNOMED

Physiome Project

Biohealthbase

Amarnath Gupta et alia: Towards a formalization of disease-specific ontologies for neuroinformatics.

Cornelius Rosse, Anand Kumar, Jose LV Mejino Jr, Daniel L Cook, Landon T Detwilern and Barry Smith, A Strategy for Improving and Integrating Biomedical Ontologies

Barry Smith, Werner Ceusters, Anand Kumar and Cornelius Rosse, On Carcinomas and Other Pathological Entities, Comparative and Functional Genomics

Some papers on SNOMED.