Commoditizing Personalized Genomics through Computational Innovations

Speaker: Dr. David Mittleman
Date: Friday, October 21, 2011
Time: 11:15am-12:15pm
Location: 2150 Torgerson

 

Abstract:
Genome-scale sequencing technologies promise to revolutionize our understanding of genetics, evolution, and disease by making it feasible to survey a much broader spectrum of sequence variation on a population scale. However, this potential can only be realized insofar as methods for extracting and interpreting all forms of variation from these new data types can be established. The error profiles and read length limitations of early versions of next-gen technologies rendered them ineffective for some sequence variant types, particularly indels (loss or gain of DNA bases; and DNA repeats). This has fostered the general misconception that such variants are inherently inaccessible to these sequencing platforms. At the same time, these variations have emerged as leading candidates for “missing heritability” in association studies. Sensitive identification of these variants in large-scale next-gen sequencing efforts will enable comprehensive genotype-phenotype studies capable of revealing previously invisible associations. In this talk, I will present a case study of how we derive mutation information from whole-genome data and discuss the emerging challenges in personal genomics. While the costs and throughputs of sequencing have continued to improve, analysis of genetic variation from whole-genome data continues to be a technical and financial challenge, requiring ever-larger computer systems to manage the increasingly intensive computational demands. There is a great opportunity for computer scientists and mathematicians to join the cause and help make sense of this growing source of biological data.

Bio:
David Mittelman completed his graduate studies at Baylor College of Medicine, where he received his Ph.D. from the Department of Biochemistry in 2007. Prior to graduate school, he was a member of the research staff in the McDermott Center for Human Growth and Development, at UT Southwestern Medical Center, where he contributed to the original Human Genome Project. After his graduate studies at Baylor, Dr. Mittelman completed his postdoctoral training in the Department of Human and Molecular Genetics at Baylor College of Medicine. In 2009, Dr. Mittelman was awarded the Ruth L. Kirschstein National Research Service Award, and began an independent research program at the Human Genome Sequencing Center at Baylor, participating in the 1000 Genomes Project and other large-scale genome studies. Currently, Dr. Mittelman is an associate professor at the Virginia Bioinformatics Institute and an associate professor in the Department of Biological Sciences at Virginia Tech.