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Bioinformatics Summit 2007
Date — May 8 and 9, 2007
Place — Courtyard Gaithersburg Washingtonian Center at Rio,
204 Boardwalk Place, Gaithersburg, MD 20878, (301) 527-9000
Background:
In the genomic era, both basic and clinical research rely heavily on database-supported computational-assisted bioinformatics. During the 2006 Bioinformatics Summit meeting, we reviewed many bioinformatics programs funded by the National Institute of Allergy and Infectious Diseases (NIAID), Division of Allergy, Immunology, and Transplantation (DAIT). We identified several areas of potential collaboration, synergy, and reusable resources within the different DAIT-funded bioinformatics and data management programs.
The main goals of the workshop in 2007 are to
- Identify challenges of data reuse and data transformation and integration for hypothesis generation and secondary data analysis
- Review alternative data management architectures from success stories and lessons learned and identify technological advances in promoting data integration
- Report progress on dealing with challenges of data sharing and protecting patient privacy
- Review efforts in building ontologies and data standards in the DAIT-funded research community
Agenda
To request audio files of the presentations, please contact Ashley Xia.
Day 1 May 8, 2007 |
| 8:30 am - 8:45 am |
Opening remarks
Ms. Cheryl Kraft, Associate Director, Office of Biomedical Informatics, Division of Allergy, Immunology, and Transplantation, NIAID |
Session I Reports on Ontologies and Data Standards in DAIT-Funded Projects
Chair: Dr. Mark Musen, Stanford |
| 8:45 am - 9: 15 am |
Representing Immunology in the GO: Ontology Development and Annotation (PDF)
Dr. Alexander D. Diehl, Senior Scientific Curator, Mouse Genome Informatics, The Jackson Laboratory |
| 9:15 am - 9:45 am |
Data Standards for Flow Cytometry Data (PDF)
Dr. Ryan Brinkman, Senior Scientist, Terry Fox Laboratory BC Cancer Research Centre, and Assistant Professor, Medical Genetics, UBC |
| 9:45 am - 10:15 am |
An Ontological Representation of Complex Immunological Networks (PDF)
Dr. Lindsay Cowell, Assistant Professor, Department of Biostatistics and Bioinformatics, Duke University Laboratory of Computational Immunology, Center for Bioinformatics and Computational Biology |
| 10: 15 am - 10:30 am |
Break |
| 10:30 am - 11: 00 am |
NCBC and Ontology Development (PDF)
Dr. Mark Musen, Stanford Medical Informatics, Stanford University Medical Center |
| 11:00 am - 11: 30 am |
HLA: 1967 - 2007 (PDF)
Dr. Effie Petersdorf, Chair of the HLA Genetics Steering Committee, Fred Hutchinson Cancer Research Center Dr. Bjoern Peters, Epitope Database, La Jolla Institute for Allergy and Immunology
Dr. Richard H. Scheuermann, PI of the BISC contact, Director, Division of Translational Pathology, Professor, Department of Pathology, U.T. Southwestern Medical Center |
| 11:30 am - 12:00 pm |
Discussion |
| 12:00 pm - 1:30 pm |
Lunch |
Session II Challenges in Data Sharing and Data Reusability
Chair: Dr. David Karp, University of Texas Southwestern Medical Center |
| 1:30 pm -2:00 pm |
FDA's Critical Path and CDER's Office of Translational Sciences: Opportunities for Collaboration (PDF).
Dr. Stephen E. Wilson, Director, Division of biometrics III, CDER, FDA |
| 2:00 pm - 2:30 pm |
Computational Approaches for Patient Privacy Protection in Secondary Data Sharing (PDF)
Dr. Bradley Malin, Assistant Professor of Biomedical Informatics, Vanderbilt University Medical Center, and Assistant Professor of Computer Science, Vanderbilt University |
| 2:30 pm - 2:45 pm |
Break |
| 2:45 pm - 3: 15 pm |
Bioethics of Bioinformatics (PDF)
Dr. David Karp, Co-PI of the BISC contract and Associate Professor and Chief, Rheumatic Diseases Division, U.T. Southwestern Medical Center |
| 3:15 pm - 3:45 pm |
Large-Scale Genetic Studies in the Framingham Heart Study (PDF)
Dr. Anita L. DeStefano, Co-Director, Biostatistics Program, and Associate Professor of Biostatistics and Neurology, Boston University Schools of Public Health and Medicine |
| 3:45 pm - 4:15 pm |
Discussion |
Day 2 May 9, 2007 |
Session III Data Interoperability in NIAID Funded Projects
Chair: Ms. Cheryl Kraft, NIAID |
| 8:00 am - 8:30 am |
BISC Update on Data Interoperability through the Use of a Generic Experiment Object Model (PDF)
Dr. Richard H. Scheuermann, PI of the BISC contract, and Director, Division of Translational Pathology, Professor, Department of Pathology, UT Southwestern Medical Center |
| 8:30 am - 9:00 am |
ITN Clinical Trials Management System (PDF)
Mr. David Parrish, Director, Bioinformatics, Immune Tolerance Network |
| 9:00 am - 9:30 am |
DMID Bioinformatics Resources (PDF)
Ms. Valentina Di Francesco, Bioinformatics Program Director, Division of Microbiology and Infectious Diseases, NIAID/NIH/DHHS |
| 9:30 am -10:00 am |
DAIDS Enterprise System (PDF)
Dr. Jonathan Kagan, Deputy Director, Program Development, Division of AIDS, NIAID
Mr. Hemant Virkar, Chief Architect, Digital Infuzion, Inc. |
| 10:00 am - 10:15 am |
Discussion |
| 10:15 am - 10:30 am |
Break |
Session IV Technology Demonstration
Chair: Dr. Richard Scheuermann, University of Texas Southwestern Medical Center |
| 10:30 am - 11:00 am |
caBIG: Lessons Learned in the BRIDG Project (PDF)
Dr. Douglas Fridsma, Assistant Professor of Medicine, University of Pittsburgh |
| 11:00 am - 11:30 am |
Second Order Semantic Enrichment and the Role of Wiki's for Professionals (PDF)
Dr. Barend Mons, Associate Professor, Dept. of Medical Informatics, Leiden University Medical Center Rotterdam, the Netherlands |
| 11:30 am - 12:00 pm |
Discussion |
DAIT Data Interoperability Steering Committee Meeting (DISC members only)
Chair: David Parrish, Director, Bioinformatics, Immune Tolerance Network
12:30 pm - 2: 30 pm |
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