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CS Seminar | Accurate and Fast RNAseq Analysis

Start Date: December 9, 2015
End Date: December 9, 2015



By Professor Wei Wang ( University of California, Los Angeles )
 


High throughput sequencing technique has been demonstrated as a revolutionary means for modern biology because it provides deep coverage and base pair-level resolution. It produces vast amount of data which pose new computational challenges, because subsequent analyses often rely on a sequence alignment step that re-establishes the origin of each read, a process that is both time consuming and error prone.  In this talk, we will present our latest accomplishment in methodology advances that dramatically accelerate the analysis by removing the necessity of sequence alignment. We will demonstrate through a concrete example of RNASeq quantification, in which we are able to achieve two orders of magnitude speedup and deliver competitive accuracy.
 
Biography Wei Wang is a professor in the Department of Computer Science at University of California, Los Angeles and the director of the Scalable Analytics Institute (ScAi). She received her PhD degree in Computer Science from the University of California, Los Angeles in 1999. She was a professor at the University of North Carolina at Chapel Hill from 2002 to 2012, and was a research staff member at the IBM T. J. Watson Research Center between 1999 and 2002. Dr. Wang's research interests include big data analytics, data mining, bioinformatics and computational biology, and databases. She has filed seven patents, and has published one monograph and more than one hundred seventy research papers in international journals and major peer-reviewed conference proceedings. Dr. Wang received the IBM Invention Achievement Awards in 2000 and 2001. She was the recipient of an NSF Faculty Early Career Development (CAREER) Award in 2005. She was named a Microsoft Research New Faculty Fellow in 2005. She was honored with the 2007 Phillip and Ruth Hettleman Prize for Artistic and Scholarly Achievement at UNC. She was recognized with an IEEE ICDM Outstanding Service Award in 2012 and an Okawa Foundation Research Award in 2013. Dr. Wang has been an associate editor of the IEEE Transactions on Knowledge and Data Engineering, IEEE Transactions on Big Data, IEEE/ACM Transactions on Computational Biology and Bioinformatics, ACM Transactions on Knowledge Discovery in Data, Journal of Knowledge and Information Systems, Data Mining and Knowledge Discovery. She has served on the organization and program committees of international conferences including ACM SIGMOD, ACM SIGKDD, ACM BCB, VLDB, ICDE, EDBT, ACM CIKM, IEEE ICDM, SIAM DM, SSDBM, RECOMB, BIBM. She was elected to the Board of Directors of the ACM Special Interest Group on Bioinformatics, Computational Biology, and Biomedical Informatics (SIGBio) in 2015

More Information:

For more info contact: Prof. Xiangliang Zhang; email: Xiangliang.Zhang@kaust.edu.sa
Date:  Wednesday  9th December   2015
Time: 12:00pm - 1:00pm
Location: Building 9, Lecture Hall II Room 2325
Light lunch will be available at 11:45 am