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Biosciences Day

On July 24,  XSEDE13 focus on work in the biosciences with a panel discussion, plenary talks, paper presentations, and lightning talks. There is a one-day registration option for those who would like to attend Biosciences Day: $200/person during the standard registration period (until June 13) and $250/person for late registration (starting June 14).

Pnael: Transforming Biosciences through Advancements in Computing and Data Analytics

1-2:30 p.m.

Moderating the biosciences panel will be Kevin Patrick (full bio below), professor of Family and Preventive Medicine at the University of California-San Diego and director of the Center for Wireless and Population Health Systems at CalIT2. Panelists will be:

  • Mark Adams is scientific director for the J. Craig Venter Institute. Trained as a microbiologist and biochemist, he developed a strong interest in bioinformatics in the early 1990s. Through 13 years working at NIH, The Institute for Genomic Research (TIGR), and Celera Genomics, he was responsible for applying new sequencing technologies and analytical approaches to sequencing of ESTs, microbial genomes, and ultimately the human genome. As one of the founding scientists at TIGR, Dr. Adams established and managed the large-scale DNA sequencing facility. He also contributed extensively to determining the first genome sequence of a free-living organism, Haemophilus influenzae, among other microbial genomes. In 1998, Dr. Adams co-founded Celera Genomics, where he was responsible for the DNA sequencing and genome annotation groups. He directed the Drosophila, human, and mouse genome sequencing projects and re-sequencing of exons and regulatory regions of all human genes to identify novel functional SNPs. In 2003 Dr. Adams went to Case Western Reserve (CWRU) as an Associate Professor in the Department of Genetics where his focus shifted toward leveraging newly available genome information and technology driven by investigation of fundamental biological problems. At CWRU, he developed a research program in the evolution and mechanisms of antibiotic resistance in the nosocomial pathogen Acinetobacter baumannii.
  • Alex Dickinson is senior vice president, Cloud Genomics, at Illumina, Inc. In this role, he is responsible for managing BaseSpace®, the company's cloud computing environment, as well as building a bioinformatics ecosystem for Illumina's customers to connect with a growing community of academic, commercial and open-source tool providers to simplify and accelerate genomic data analysis. In 2007 Alex co-founded Helixis, a venture-backed startup that developed a unique low-cost genomics instrument, and served as its CEO until the company's acquisition by Illumina in 2010. Previously, he was the co-founder and CEO of Luxtera, the world's leading silicon photonics company, where he currently serves on the board of directors. Earlier, he held the position of director in Lucent Technologies' New Ventures Group, where he was responsible for identifying promising Bell Labs technologies and creating venture-backed companies to commercialize them. Alex began his technology career at AT&T Bell Labs and has been awarded over 50 U.S. and international patents. He holds a B.E. and Ph.D. from the University of Adelaide, Australia, and an MBA from Columbia University.
  • Donald Jones serves as vice president of Global Strategy and Market Development for Qualcomm Life, a wholly owned subsidiary of Qualcomm Incorporated. He is responsible for Qualcomm's development of wireless technologies and platforms in the health, fitness and life sciences markets, and is recognized as a leader in the field. Jones also is the chief digital officer at the Scripps Translational Science Institute. In 2005, he founded and is chairman of the Wireless Life Sciences Alliance (WLSA), a 501c(6) trade organization that works with both the wireless and health industries to enable new business models, new businesses and clinical process improvements in all sectors, including consumer health, fitness, healthcare services, healthcare IT, pharmaceutical and medical devices. Don is also a member of the World Economic Forum Global Agenda Council on Digital Health. He is on the boards of the Alliance Healthcare Foundation and the American Telemedicine Association and was a founding board member of the West Wireless Health Institute. In early 2010, Jones was named to the Consumer Products Innovations Board at Sanofi-Aventis Pharmaceuticals. Don has over 20 years background in health services, including Chief Operating Officer of Medtrans (now EMSC), the largest provider of emergency medical services and emergency physician services in the world, and was founder and chairman of EMME, the largest subscriber based consumer health services company in North America.
  • Darryl León, Ph.D., is an associate director with Product Management in the Ion Torrent division of Life Technologies, where he provides product management and marketing insight for innovative Ion Torrent software and computer hardware products. Previously, he was a marketing director at Accelrys in San Diego, and he has over 10 years experience with other software informatics companies, such as TimeLogic, LION Bioscience, and DoubleTwist. He was a faculty member at California Polytechnic State University, San Luis Obispo, and has authored numerous scientific papers and two technical books. He also has taught at the University of California - Santa Cruz and - San Diego Extension campuses. Dr. León received his Ph.D. in biochemistry (Protein Kinases) from the University of California-San Diego, and he did his postdoctoral research in RNA-folding at the University of California-Santa Cruz.
  • Glen Otero received his PhD in microbiology and immunology from UCLA in 1995 and his B.S. in biochemistry from the University of Illinois at Urbana-Champaign in 1988. He has 20 years of life science industry and research experience and 10 years of high-performance computing experience. He has led technical efforts at DoubleTwist, Blackstone Computing, Linux Prophet, Callident, and Orion Multisystems. Before joining Dell, Otero was a bioinformatics/HPC project leader at SAIC. As a product technology consultant in Dell's Advanced Systems Group, Otero is responsible for capturing computational biology requirements from customers and incorporating them into HPC design recommendations for Dell's HPC Group. He also works closely with Dell's partners to research and document various aspects of bioinformatics application performance. Otero is a member of the Board of Directors at Bionformatics.org, where he hosts BioBrew, an open-source bioinformatics cluster toolkit.
  • Nicholas Schork is director of Bioinformatics and Biostatistics at the Scripps Translational Science Institute and professor, Department of Molecular and Experimental Medicine, at The Scripps Research Institute. His interest and expertise are quantitative human genetics and genomics, especially the design and implementation of methodologies to dissect the genetic basis of complex traits and diseases. He has published over 250 scientific articles and book chapters on the analysis of complex, multi-factorial traits and diseases. Prior to joining Scripps in 2007, he served for seven years as professor of Biostatistics and Psychiatry and co-director of the Center for Human Genetics and Genomics at the UC San Diego. From 1994 to 2000, he was an associate professor of Epidemiology and Biostatistics at Case Western Reserve University in Cleveland, Ohio, and an associate professor of Biostatistics at Harvard University. During 1999 and 2000, he took a leave of absence to conduct research as the vice president of Statistical Genomics at the French biotechnology company Genset, where he helped guide efforts to construct the first high-density map of the human genome. A member of several scientific journal editorial boards, Nik is a frequent participant in U.S. National Institutes of Health-related steering committees and review boards, and has served on the advisory board of five companies. In addition, he is currently director of the Bioinformatics and Biostatistics Core of the National Institute of Aging-sponsored Longevity Consortium and a member of the Genetic Association Information Network (GAIN) data analysis committee of the National Human Genome Research Institute
  • Kevin Patrick is professor of Family and Preventive Medicine at the University of California, San Diego, editor-in-chief of the American Journal of Preventive Medicine and director of the Center for Wireless and Population Health Systems at the California Institute for Telecommunications and Information Technology (Calit2), San Diego Division. He is a senior advisor to the Robert Wood Johnson Foundation (RWJF) Active Living Research Program. He is a past president of the Association for Prevention Teaching and Research and served on the Secretary's Council for Health Promotion and Disease Prevention of the U.S. Department of Health and Human Services. He has been a PI or co-PI on more than $35 million in research and training grants funded by NIH, NSF, CDC, HRSA and others. His research explores how to use mobile and social technologies to measure and improve health-related behaviors, in particular physical activity and diet, in a variety of populations, including overweight adolescents and adults and individuals with chronic disease. He is co-founder of Santech, Inc., a company based in San Diego that is developing and marketing research-proven mobile behavior change technologies.