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Workshop Archive - W3C Workshop on Semantic Web for Life Sciences

October 27

Keynote Address

Semantic Web for Life Sciences

Tim Berners-Lee - Director, World Wide Web Consortium (slides)

Session I: Industry Perspectives On Semantic Web For Life Sciences

Nor Any Other Part Belonging To a Gene, Hugh Salamon - Senior Computational Biologist, Berlex Biosciences (slides)

Applications of the Semantic Web in a Global Pharmaceutical R&D Environment, Ted Slater - Associate Research Fellow, Pfizer (slides)

Pharmaceutical R&D and the Role of Semantics in Information Management and Decision-Making, Otto Ritter - Associate Director, Bioinformatics, Astra Zeneca R&D (slides)

Luncheon Speakers:

Exploring Semantic Web Infrastructure for Life Science Knowledge-bases, Ian Wilson - University of Colorado (slides)

GoPubMed and Beyond: Rules and Reasoning for Ontology-Based Literature Search, Michael Schroeder - European Network of Excellence REWERSE (slides)

The Protege Ontology Editor, Natasha Noy - Stanford Medical Informatics (slides)

A KnowledgeBase Project for Alzheimer Disease Research, Tim Clark - Massachusetts General Hospital (slides)

Session II: Scientific Publishing and Semantic Web

MODERATOR:

Alan Aronson - Semantic Knowledge Representation Group, National Library of Medicine (slides)

SPEAKERS:

Urchin RSS/ The Urchin/Kowari Project, Ben Lund - Nature Publishing Group (slides) / David Wood - Tucana Technologies (slides)

Semantic Web and Elsevier, Marc Krellenstein - Vice President, Search & Discovery Technology, Elsevier (slides)

Semantic Web for Data Interpretation & Integration: Lessons Learned from Scientific Publishing and the Distributed Annotation System Steve Chervitz - Bioinformatics Engineer, Affymetrix (slides)

Session III: Triples and Ontologies

MODERATOR:

David States - Professor of Human Genetics, Director of Bioinformatics, University of Michigan School of Medicine (slides)

SPEAKERS:

UniProt in RDF Format: Use Cases and Open Issues, Eric Jain - Swiss Institute of Bioinformatics / UniProt (slides)

Data Integration, Gene Ontology, and the Mouse, Joel Richardson - Jackson Laboratories (slides)

The MGED Ontology, Liju Fan - KEVRIC (on behalf of the Microarray Gene Expression Data Society) (slides)

Session IV: Web Services and Semantic Web

SPEAKERS:

The Semantic Web: Service Discovery and Provenance in myGrid, Chris Wroe/Phil Lord - University of Manchester (slides)

Accessing and Manipulating Ontologies Using Web Services, Oliver Dameron - Stanford Medical Informatics (slides)

Semantic MOBY, Gary Schiltz - National Center for Genome Resources (slides)

28 October

Keynote Address

The Cancer Bioinformatics Grid

Ken Buetow - Director, National Cancer Institute Center for Bioinformatics (slides)

Session V: Life Science Identifiers - Use Cases, Future Directions

MODERATOR:

Ted Liefeld - Senior Software Architect, Cancer Genomics, Broad Institute (MIT) (slides)

SPEAKERS:

Object Identity and Life Science Research, Robert Robbins - VP Information Technology, Fred Hutchison Cancer Research Center (slides)

Fine-grained References into Binary Data and Data Virtualization Services, Jim Myers - Computational Sciences and Mathematics Division, Pacific Northwest National Laboratory (slides)

Semantic Layered Research Platform, Sean Martin - IBM (slides)

Luncheon Speakers

Semantic Web Technology in Support of Bioinformatics for Glycan Expression, Amit Sheth - University of Georgia and Semagix, Inc. (slides)

ExperiBase, C. Forbes Dewey - Professor of Mechanical Engineering / Bioengineering, MIT/CSBi (slides)

A Framework for Annotating High-Throughput Genome-wide Screens, Josh Moore (slides)

Semantic Web Technologies for Analysis of Transcriptome, Rose Dieng-Kuntz -INRIA, UR Sophia Antipolis Project ACACIA (slides)

Session VI: Cheminformatics and the Semantic Web

SPEAKERS:

Chemical Annotations Using Semantic Web, Eric Neumann - Global Head of Knowledge Management, Aventis Pharmaceuticals (slides)

Babel-fish in Cheminformatics, Richard Scott - Technology Development Director, De Novo Pharmaceuticals (slides)

Inchl LSID, Peter Murray-Rust (slides)

Session VII: Semantic Aggregation, Integration and Inference

MODERATOR:

Joanne Luciano - Harvard Medical School / BioPAX / Biopathways Consortium (slides)

SPEAKERS:

Data Integration: Some Enabling Steps, Andy Seaborne - Semantic Web Group/Bristol, Hewlett Packard (slides)

RDF in Oracle Network Data Model, Nicole Alexander - Oracle (slides)

Lab-to-Lab Connectivity and Semantics in the Life Sciences, Greg Meredith - Djinnisys (slides)