DC: SMALL: EFFICIENT ALGORITHMS
FOR DATA-INTENSIVE BIO-COMPUTING
PUBLICATIONS
Parallel protein family detection, clustering and dense subgraph detection
(2010) C. Wu, A. Kalyanaraman, W. Cannon. A scalable parallel algorithm for large-scale protein sequence homology detection. Proc. International Conference on Parallel Processing (ICPP), Accepted.
(2008) C. Wu, A. Kalyanaraman. An efficient parallel approach for identifying protein families in large-scale metagenomic data sets. Proc. ACM/IEEE conference on Supercomputing (SC|08), Austin, TX, November 15-21, pp. 1-10, ISBN 978-1-4244-2835-9, IEEE Press, Piscataway, NJ, USA.
Mass spectrometry based peptide identification
(2009) G. Kulkarni, A. Kalyanaraman, W. Cannon, D. Baxter. A scalable parallel approach for peptide identification from large-scale mass spectrometry data. Proc. International Conference on Parallel Processing Workshops (ICPP-W), pp. 423-430, Vienna, Austria, September 22-25, DOI 10.1109/ICPPW.2009.41
Multicore and hardware acceleration
(2010) T. Majumder, S. Sarkar, P. Pande, A. Kalyanaraman. An optimized NoC architecture for accelerating TSP kernels in breakpoint median problem. Proc. IEEE International Conference on Application-specific Systems, Architectures and Processors (ASAP), In Press.
(2010) S. Sarkar, T. Majumder, A. Kalyanaraman, P. Pande. Hardware accelerators for biocomputing: A survey. Proc. IEEE International Symposium on Circuits and Systems (ISCAS), In press.
(2010) S. Sarkar, G. Kulkarni, P. Pande, A. Kalyanaraman. Network-on-chip hardware accelerators for biological sequence alignments. IEEE Transactions on Computers, 59(1):29-41.
Email:
ananth@eecs.wsu.edu Ph:
(509) 335-6760 Fax: (509) 335-3818
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