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IAS Seminar "Compressive Genomics for High-Throughput Sequencing Data"

begin
13.Sep.2013 14:00
end
13.Sep.2013 15:00
venue
Jülich Supercomputing Centre, Rotunda, building 16.4, room 301
Speaker:
Dr. Alexander Schliep, Associate Professor,
Department of Computer Science & BioMaPS Institute for Quantitative Biology,
Rutgers, The State University of New Jersey, Piscataway, NJ, USA
Abstract:

High-throughput sequencing (HTS), a technology to unravel gene sequences on a large scale, is pervasive in clinical and biological applications such as cancer research, and expected to gain enormous momentum in future personalized medicine applications. In order to facilitate computations, new computer algorithms have to be developed which work directly on a compressed version of the data (compressive genomics), thus simplifying and accelerating analysis and advancing further into the era of personal genomics.

Typical data sets consist of up to 2 billions of sequencing reads, and large studies might provide hundreds of such data sets. A core part of the analysis is read error correction, mapping to the reference genome and identifying genetic variations. Our compressive genomics approach is based on a greedy clustering method able to cluster billions of reads, and adaptations of downstream algorithms to directly
work on the clustered representations.

Date:
Friday, 13 September 2013, 14:00
Venue:
Jülich Supercomputing Centre, Rotunda, building 16.4, room 301
Announcement as pdf file:
 Compressive Genomics for High-Throughput Sequencing Data (PDF, 29 kB)

Dr. Schliep has been invited by the Simulation Laboratory Biology at JSC.

Anyone interested is cordially invited to participate in this seminar.


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