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Information Science Standards to
Enable Biomedical Research

Satellite meeting for “Digital Biology: The Emerging Paradigm”

November 4-5, 2003           Bethesda, Maryland

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Dr. Milton Corn is Associate Director of the National Library of Medicine and Director of the Library's grant programs, a principal source of funding for medical informatics research and training in the U.S. He is a graduate of Yale College and Yale Medical School. He was trained in internal medicine at Harvard's Peter Bent Brigham Hospital, and in hematology at Johns Hopkins. Most of his academic career was spent at Georgetown University School of Medicine, where he held the appointment of Professor of Medicine. In 1984-85 he was Medical Director of Georgetown University Hospital, and subsequently served for four years as Dean of Georgetown's Medical School. He joined the National Library of Medicine in 1990.

Dr. Monica Crubézy is a research scientist in the Stanford Medical Informatics laboratory at Stanford University. Her research focuses on the modeling of libraries of reusable software components and their integration with domain ontologies to build problem-solving applications. In particular, Dr. Crubézy builds tools for mapping and mediating data and knowledge among components of ontology-based systems. Dr. Crubézy graduated from the Ecole Polytechnique Féminine, France, in general engineering and computer science. She has a PhD in computer science from the University of Nice-Sophia Antipolis, France and the Institut National de Recherche en Informatique et Automatique (INRIA), France. Her research thesis focused on the automatic selection, planning and execution of software components in the domain of medical image processing. Visit her website at: http://smi.stanford.edu/people/crubezy/.

Dr. David Benton is Director, Knowledge Integration and Discovery Systems in the Informatics and Knowledge Management Department, R&D IT, GlaxoSmithKline. His interests include the application of intelligent information integration approaches, ontologies, component architectures, and visualization systems to priority drug discovery problems. Prior to joining SmithKlineBeecham in 1997, he was Director, Genome Informatics Program, National Human Genome Research Institute, National Institutes of Health. And, prior to joining NIH in 1990, he was Manager of the GenBank project at IntelliGenetics, Inc (1987-1990) and a staff researcher at the ARCO Plant Cell Research Institute (1980-1987). In addition, since 1997, he has served as Co-Chair of the Life Sciences Research Domain Task Force, within the Object Management Group. This consortium of pharmaceuticals, biotechs, software vendors, and academics seeks to develop industry standards to support software interoperability for bioinformatics, genomics, cheminformatics, structural biology, and related domains.

Dr. Gary Bader is currently a post-doctoral fellow in the lab of Dr. Chris Sander at the Computational Biology Center at Memorial Sloan-Kettering Cancer Center in New York City. Previously, Gary completed a Ph.D. in the lab of Dr. Christopher Hogue in the Department of Biochemistry at the University of Toronto and the Program in Proteomics and Bioinformatics at the Samuel Lunenfeld Research Institute at Mount Sinai Hospital in Toronto. His thesis research involved helping to conceptualize the Biomolecular Interaction Network Database (BIND) with Dr. Hogue, originally an idea of Dr. Tony Pawson. Gary implemented the original version of BIND and used it for visualization and analysis of large protein and genetic interaction networks generated by new high-throughput proteomics and genomics techniques. He received a B.Sc. in Biochemistry from McGill University in Montreal as well as the equivalent of an undergraduate major in computer science from McGill University and University of Toronto.

Dr. Bruno Sobral, founding Director of the Virginia Bioinformatics Institute and Professor of Plant Physiology, Pathology and Weed Science at Virginia Tech, has a long-standing personal interest in reverse engineering living systems, especially in agriculturally or environmentally important organisms. His main wetlab research entails using comparative genomics, bioinformatics and proteomics to understand host-pathogen-environment interactions. His cyberinfrastructure research is focused on engineering robust and open frameworks for data and on tool interoperability and integration for Life Sciences. Dr. Sobral received his Ph.D. in Genetics from Iowa State University in 1989, and his Agronomic Engineer degree from the Federal University of Viçosa in Brazil in 1985. He has worked in a number of international research organizations, including Genetica Americas (La Jolla, 1995-98), the Center for Applications of Molecular Biology to International Agriculture (Canberra, 1993-96), and the California Institute of Biological Research (CIBR, La Jolla, CA; 1991-95); and just prior to moving to Virginia, he was Vice President of Scientific Programs at the National Center for Genome Resources in Santa Fe. He has simultaneously held adjunct faculty appointments at New Mexico State University, University of New Mexico, and San Diego State University.

Dr. Michael W. Vannier is Professor of Radiology at the University of Iowa, College of Medicine and was Special Assistant to the Director of the Biomedical Imaging Program at the National Cancer Institute from 2001 to 2003. Dr. Vannier was the Georgia Eminent Scholar in Medical Imaging at the Emory University School of Medicine in Atlanta, Georgia from 1994 to 1996, and served as Vice-Chairman for Research at the Mallinckrodt Institute of Radiology from 1992 to 1994. Dr. Vannier was Professor of Radiology at the Mallinckrodt Institute of Radiology from 1989 to 1997, as an Assistant Professor of Radiology and Surgery at the Washington University School of Medicine in St. Louis, Missouri from 1983 to 1997, and Editor-in-Chief of the IEEE Transactions on Medical Imaging from 1984 to 2002. Dr. Vannier is a Fellow of the American College of Radiology and a Fellow of the American Institute of Medical and Biological Engineering. Dr. Vannier has been a director of Vital Images, Inc. (NASDAQ: VTAL) since December 1997.

Larry Reeker is Senior Computer Scientist in the Information Technology Laboratory office at the National Institute of Standards and Technology. He handles a National Science Foundation-NIST program in summer information technology research for undergraduates and serves as a liaison to other government agencies, both directly and through the National Coordinating Office for Information Technology Research and Development, is an advisor to the Army Science board and a member of the Research Management Board for the Army Research Laboratory's Advanced Decision Systems Program. He was formerly a professor at Ohio State, Arizona, Queensland (Australia) and Tulane, heading a CS department at the last two. His published papers, research, and teaching have been in artificial intelligence, linguistics and natural language processing, models of learning, program languages and environments, theory of computing, knowledge engineering, and software engineering. Outside of academia, he was a VP at a 4000-employee technical corporation, research staff member at a "think tank", and program director at the National Science Foundation, prior to joining NIST in 1998. Professional activities have included serving on the ACM's governing board, voluntary standards activities and university accreditation work through IEEE, on advisory committees for educational institutions, and reviewing research proposals for multiple agencies in the U.S and abroad. He is currently doing research in knowledge modeling and testing. His undergraduate degree is from Yale (Math, Philosophy, Linguistics) and his PhD from Carnegie Mellon in Computer Science.

Dr. Kenneth Buetow received a B.A. in Biology from Indiana University in 1980, and a Ph.D. (1985) in Human Genetics from the University of Pittsburgh. From 1986 to 1998 Dr. Buetow was at the Fox Chase Cancer Center in Philadelphia, where his group generated and electronically distributed the human genetic map. Dr. Buetow serves a dual role for the National Cancer Institute. He is the Director of the NCI Center for Bioinformatics (NCICB) and Chief of the Laboratory of Population Genetics (LPG). His research interests include the application of genetics and genomics tools to understand the genetic basis of complex traits. Dr. Buetow has spearheaded efforts of the Genetic Annotation Initiative (GAI), an attempt to identify variant forms of the cancer genes identified through the NCI Cancer Genome Anatomy Project (CGAP). He is particularly interested in genetic variations that make individuals more susceptible to liver, lung, prostate, breast, and ovarian cancer. His group combines computational tools with bench-top laboratory findings to understand how genes and environment interact to increase cancer risk. The NCICB coordinates and deploys informatics in support of NCI research initiatives. Its goal is to maximize interoperability and integration of NCI research and its related information. The Center participates in the evaluation and prioritization of the NCI's bioinformatics research portfolio, conducts or facilitates research that is required to address the NCICB's mission, serves as the locus for strategic planning to address the NCI's expanding research initiative's informatics needs, establishes information technology standards (both within and outside of NCI), and communicates, coordinates, or establishes information exchange standards. The LPG conducts human genetic and genomics research, both at the bench and using informatics tool. The major goal of this research program is to apply and extend human genetic analysis methods and resources to better understand the genetics of complex phenotypes, specifically human cancer.

Dr. Richard Hilderbrandt joined the National Science Foundation in 1987 as the Program Director for Theoretical and Computational Chemistry. In 1999 he led the NSF-wide Knowledge and Distributed Intelligence Initiative, and in 2000 he joined the CISE Directorate as the first Program Director for Information Technology Research. Since September of 1999 he has served as the Program Director for the Partnerships for Advanced Computational Infrastructure and has managed the NSF Terascale Initiative.

Dr. Ian Foster is Associate Director of the Mathematics and Computer Science Division at Argonne National Laboratory and Professor of Computer Science at the University of Chicago. The Distributed Systems Lab that he heads at Argonne and Chicago is home to the Globus Toolkit, the open source software that has emerged as the de facto standard for Grid computing. He has published five books and over 200 articles and technical reports on various topics relating to programming languages, parallel computing, and distributed systems. He is a fellow of the British Computer Society, and has received numerous awards for his research, including the GII Next Generation Award and the British Computer Society's Lovelace Medal.

Dr. Andrew Grimshaw, Avaki Founder & Chief Technology Officer Long considered one of the true visionaries in the distributed computing movement, Dr. Andrew Grimshaw is the Founder and Chief Technology Officer of Avaki. After receiving his Ph.D. from the University of Illinois at Urbana-Champaign, he joined the University of Virginia as an assistant professor of Computer Science, and became a full professor in 1998. As the chief designer and architect of both the Mentat and Legion projects, and the author of over 50 publications and book chapters, Dr. Grimshaw is a strong believer in open standards and industry-wide collaboration. He is a founding member of the Global Grid Forum (GGF), where he serves on the Steering Committee and works within the Open Grid Service Infrastructure Working Group (OGSI-WG). An avid presenter on the global lecture circuit, Dr. Grimshaw has spoken at hundreds of conferences and tradeshows worldwide. In addition to his role of visionary and strategist at Avaki, Dr. Grimshaw has worked on numerous industry initiatives such as the National Partnership for Advanced Computational Infrastructure (NPACI) Executive Committee, the Department of Defense High Performance Computing Modernization Office (DoD HPCMO) Program Environment & Training (PET) Executive Committee, the National Institute of Standards and Technology (NIST) Information Technology Library (ITL) review panel, the National Aeronautics and Space Administration (NASA) Center of Excellence in Space Data and Information Sciences (CESDIS ) review panel, and the editorial board of the Institute of Electrical and Electronics Engineers (IEEE) Transactions on Parallel and Distributed Computing.

Dr. Arlin Stoltzfus uses computational and analytical tools to study the evolution of genes, proteins, and genomes. Before becoming a computational biologist, he received laboratory training in bacterial genetics and molecular biology. Most of Stoltzfus's research is in two areas, the evolution of introns, and the role of mutation biases in sequence evolution. This research is motivated by classic evolutionary questions: Do trends and parallelisms reflect external factors (natural selection) or internal factors (mutation)? How much of evolution is adaptive? Do complex functions arise incrementally by the adaptive accumulation of small-effect variants, or must one invoke other mechanisms?

Dr. Atul Butte is currently on staff in the Children's Hospital Informatics Program, is a practicing pediatric endocrinologist at Children's Hospital, Boston, and is an Instructor at Harvard Medical School. Dr. Butte has authored 25 publications in bioinformatics, medical informatics, and molecular diabetes and has delivered more than 30 presentations world-wide on bioinformatics, including four at the National Institutes of Health. During his research work under Dr. Isaac Kohane, he developed a novel methodology for analyzing large data sets of RNA expression, called Relevance Networks. Dr. Butte has won several awards for his research, which is supported by grants from NCI, NIDDK, NHLBI, NINDS, NIAID, NLM, the Endocrine Fellows Foundation, the Genentech Center for Clinical Research and Education, the Lawson Wilkins Pediatric Endocrinology Society, and Merck. Along with Isaac Kohane and Alvin Kho, Dr. Butte has co-authored one of the first books on microarray analysis titled "Microarrays for an Integrative Genomics" published by MIT Press. Dr. Butte received his undergraduate degree in Computer Science from Brown University in 1991. He graduated from the Brown University School of Medicine in 1995, during which he worked as a research fellow at NIDDK through the Howard Hughes/NIH Research Scholars Program. He completed his residency in Pediatrics and Fellowship in Pediatric Endocrinology in 2001, both at Children's Hospital, Boston.

Keith Elliston, PhD. brings to Genstruct compelling experience as a molecular biologist, a computer technologist, and an entrepreneur. He was Chairman, President and CEO of Viaken Systems Inc., a discovery informatics company he co-founded in 1999. Prior to Viaken, Keith was the Sr. VP of R&D, President of the Bioinformatics Division, and Chief Scientific Officer at Gene Logic. While at Gene Logic, he secured and managed six pharmaceutical discovery partnerships worth more than $350M in potential revenues, and was instrumental to the Series C and initial public offerings of the company. Keith founded the bioinformatics and genomics efforts of Bayer AG, where he was the world-wide head of bioinformatics, and the Section Head for Genomics. Prior to Bayer, he spent 10 years with Merck & Co. Inc., where he started one of the first computational molecular biology groups in the pharmaceutical industry, and where he founded and directed the department of bioinformatics. He also co-founded and directed the Merck Gene Index project, Merck's first genomics effort, which resulted in over 400,000 Genbank entries and was responsible for the initial discovery of more than 30,000 human genes. Keith has also been an advisor to Oak Investment partners and other biotechnology venture capital groups, and has participated in the early stage development of a number of biotech companies, including Sequana Therapeutics, Structural Genomics and Spotfire. Keith received an M.S. in Genetics from the University of Minnesota, and a Ph.D. in Molecular Genetics from Rutgers University.

Dr. John Doyle is a Professor in Control and Dynamical Systems, BioEngineering, and Electrical Engineer at Caltech. His current research interests are in theoretical foundations for complex networks in engineering and biology, as well as multiscale physics, focusing on the interplay between robustness, feedback, control, dynamical systems, computation, communications, and statistical physics. Prize papers include the IEEE Baker (also ranked in the top 10 ``most important'' papers world-wide in pure and applied mathematics from 1981-1993), the IEEE AC Transactions Axelby (twice), and the AACC Schuck. Individual awards include the IEEE Control Systems Award and the IEEE Centennial Outstanding Young Engineer. He has held national and world records and championships in various sports.

Dr. Srikanta P. Kumar received the B.S. degree (Honors) in physics from Bangalore University, Bangalore, India, in 1971, and M.E. degrees from the Indian Institute of Science, Bangalore, in 1974 and 1976, respectively, and the Ph.D. degree in engineering and applied science from Yale University, New Haven, CT, in 1981. Dr. Kumar is currently a Program Manager at the Defense Advanced Research Projects Agency (DARPA), and Senior Technical Advisor in the Information Technology Laboratory of the National Institute of Standards and Technology (NIST). At DARPA, he formulated the technical framework for research and technology development for several programs, including the sensor information technology (SensIT) program, the network modeling and simulation (NSM) program, and the bio-computation (BioComp) program. He has been also responsible for the management and execution of these programs. Dr. Kumar was a tenured faculty member in the Electrical and Computer Science and Engineering Department, Northwestern University, Evanston, IL, from 1985 to 1998. While at Northwestern, he was the co-founder and founding Director of the Executive Masters Program on Information Technology, an interdisciplinary program involving the McCormick School of Engineering, the Kellogg Business School, and the Communications Department. He served on the faculty of Electrical, Computer, and Systems Engineering Department, Rensselaer Polytechnical Institute, Troy, NY, from 1982 to 1985, and the State University of New York at Buffalo from 1981 to 1982. He has held visiting professor positions at Johns Hopkins University and the University of Maryland campuses at College Park and Baltimore County. He has published more than 80 technical papers.

Dr. Bob Eisenberg is the Bard Professor and Chairman, Dept. of Molecular Biophysics and Physiology, Rush Medical Center, Chicago. His research focuses on quantitative computational biology, in particular on the development of mathematical models for multi-scale analysis of ion channels, seeking to predict the current through the channel, in a range of solutions of different composition, over a range of voltages. After single channel recording was discovered, he (along with Rick Levis and Jim Rae) designed the AxoPatch patch clamp amplifier which is used by most workers in the field to this day. He served as Chairman of the Physiology Study Section of the NIH for several years, and Director of Research (etc) for the American Heart Association (Chicago Branch). Dr. Eisenberg received his A.B. (summa cum laude) from Harvard College, and a Ph.D. from the University College London.

Date created: 10/10/03
Last Updated: 10/28/03
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