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Ph.D. Proposal Oral Exam - Nagakishore Jammula

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Title:  PARALLEL ALGORITHMS FOR ENABLING FAST AND SCALABLE ANALYSIS OF
HIGH-THROUGHPUT SEQUENCING DATASETS

Committee:

Dr.. Aluru, Advisor

Dr. Qureshi, Chair

Dr. Vuduc

Abstract:

The objective of the proposed research is to develop parallel algorithms for enabling fast and scalable analysis of large-scale high-throughput sequencing datasets. Genome of an organism consists of one or more long DNA sequences called chromosomes, each a sequence of bases. Depending on the organism, the length of the genome can vary from several thousand bases to several billion bases. Genome sequencing, which involves deciphering the sequence of bases of the genome, is an important tool in genomics research. Sequencing instruments in vogue today can only read short DNA sequences. However, these instruments can read in excess of a billion such sequences at a time, and are used to sequence a large number of randomly generated short genomic fragments from the genome. These fragments are a few hundred bases long and are commonly referred to as “reads”. The proposed research specifically tackles two problems associated with high-throughput sequencing datasets: (1) Parallel read error correction for large-scale genomic datasets and (2) Partitioning of large-scale high-throughput sequencing datasets.
 

Status

  • Workflow Status:Published
  • Created By:Jacqueline Trappier
  • Created:08/08/2017
  • Modified By:Jacqueline Trappier
  • Modified:08/08/2017

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