This presentation was given Thursday, August 25, 2011 at the NoSQL Now! 2011 Conference in San Jose, California
About the Presentation
Deep genome sequencing has revolutionized the fields of biology and medicine. Since January 2008, the capacity to generate sequence data has increased exponentially, far outpacing Moore’s Law. The emergence of scalable NoSQL database technologies has made the analysis of this vast amount of sequence data not only feasible, but cost effective.The University of California at San Francisco UCSF-Abbott Viral Detection and Discovery Center, led by director Charles Chiu, MD, PhD, Taylor Sittler, MD and the Hypertable development team have embarked upon a project to build a scalable software platform to facilitate deep sequencing analysis in diagnostic microbiology, transcriptomic analysis, and clinical / environmental metagenomics, areas for which existing commercial and academic solutions are sorely lacking. Doug Judd, the original creator of Hypertable, will present an overview of this genome sequencing analysis system. The presentation will cover the following topics:
- Rationale for choosing NoSQL
- Schema design
- Sources and description of input data
- Algorithms for generating and querying lookup tables
- Table sizes and compression ratios
- Lessons learned during system deployment
About the Speaker
Douglass R Judd
CEO
Hypertable, Inc
Doug is co-founder and CEO of Hypertable, Inc, a company that provides commercial support for Hypertable, a massively scalable, open source database. Doug started the Hypertable open source project in 2007, while working as an Architect at Zvents, and has been actively building the technology ever since. Doug has over a decade of software engineering experience in the area of distributed computing and information retrieval. He joined Inktomi’s Web Search division in 1997 where he held both engineering and management positions. During his five year tenure, he designed and developed large-scale distributed systems, including significant pieces of the crawling and indexing software. Doug earned a B.S. in Computer Science from U.C. Santa Barbara in 1992 and holds four patents in search technology.
