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EBIGroupsMicroarrayEventsSOFG

SOFG

SOFG -- Standards and Ontologies for Functional Genomics

17th to 20th November, 2002
Wellcome Trust Genome Campus, Hinxton, Cambridge, UK

[Wellcome Trust Sponsored]

NEW SOFG WEBSITE AT http://www.sofg.org/

PLEASE FIND THE SOFG PRESENTATIONS / ABSTRACT BOOK ON THE POST CONFERENCE PAGE.

Introduction

The goal of this conference is to bring together scientists who are developing standards and ontologies for describing microarray and other
high throughput functional genomics experiments.

Conference sessions will focus on the discussion of standard nomenclature and ontologies from numerous different perspectives, from theoretical
considerations to practical applications. Topics include vocabularies
applicable to many species, such as chemical and biochemical nomenclature and the molecular biology vocabularies developed by the Gene Ontology Consortium; organism-specific vocabularies for phenotypes, anatomies and developmental stages; and other areas such as diseases and toxicology. The conference will emphasize the importance of coordinating development of publicly available ontologies so that needless duplication of effort does not occur. Additional topics for discussion will include the logical models and structures used in ontology construction, the generation of standard vocabulary content, and tools to facilitate building and using ontologies.

The organisers will be happy to provide those wishing to apply for travel funds in their home countries with letters of support and/or further conference details.

Programme and organising committee

  • Michael Ashburner, University of Cambridge (chair)
  • Cathy Ball, Stanford University, USA.
  • Mike Bittner, NHGRI, USA
  • Alvis Brazma, EMBL-EBI, UK
  • Duncan Davidson, MRC Human Genetics Unit, Edinburgh, UK
  • Victor Markowitz, Industry (Gene Logic), USA.
  • Martin Ringwald, The Jackson Laboratories, USA
  • Steffen Schulze-Kremer, German Genome Resource Centre, Germany.
  • Paul Spellman, University of California at Berkeley, USA.
  • Robert Stevens, University of Manchester, UK
  • Chris Stoeckert, University of Pennsylvania, USA
  • Liz Ford, EMBL-EBI, UK.
  • Midori Harris, EMBL-EBI, UK.
  • Helen Parkinson, EMBL-EBI, UK.

Highlights

Key-note speakers:

  • Kenneth Buetow, NCI, USA.
  • Peter Karp, SRI International, USA.
  • Winston Hide, SANBI, South Africa.
  • Lincoln Stein, Cold Spring Harbor Laboratory.

Topics will include:

  1. Introduction to Ontologies
  2. Gene Ontology (GO) and Global Open Biology Ontologies (GOBO)
  3. Organism Specific Ontologies - anatomy, phenotype, development mouse, human, plant, fly etc.
  4. Mappings Between Organism Ontologies
  5. Disease and Pathology Nomenclature
  6. Chemical Nomenclature and Classification
  7. Toxicology
  8. MGED ontologies
  9. Miscellaneous Ontologies
  10. Tools for building ontologies
  11. Implementation and use of Ontologies in databases
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