Monday 25th of September 2017
 

Parallelized Sequence Comparison of Human and Naked Mole Rat for Aging Studies


Vidya A, Venugopal K R and Patnaik L M

A significant increase in the elderly population in the last few decades is expected to rise even more in near future. Inspite of advancement in research on aging; still aging remains unrevealed to a larger extent. Aging is considered to be a major cause for many diseases like cancer, diabetes, Parkinson. The naked mole rat is one of the most promising rodents in aging research. The present work deals with the application of parallel computation to compare the mitochondrial RNA of human with naked mole rat using combined approach of Spectral Clustering and Parallel Markov Models (SCPMM). The clusters obtained using this combined approach appears to be more related to each other than the conventional hierarchical clustering algorithms thus inferring more information from parallel alignment-free sequence comparison. Further studies are being carried out to optimize the code by building a MATLAB-based down-link physical-layer simulator using the parallel computing toolbox and the parallel control flow structure, which significantly reduces the simulation time on multi-core processors.

Keywords: Aging, Markov Models, Naked Mole Rat, Parallel Computing, Spectral Clustering

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ABOUT THE AUTHORS

Vidya A
Vidya A is an Assistant Professor in the Department of Information Science and Engineering at Vivekananda Institute of Technology, Bangalore, India. She obtained her B.E and M.E degrees in computer Science and Engineering from Bangalore University, Bangalore. She is presently pursuing her Ph.D programme in the area of Data Mining in JNTU Hyderabad. Her research interest includes Data Mining, Pattern Recognition, Bioinformatics and Image Processing.

Venugopal K R
Department of Computer Science and Engineering, University Visvesvaraya College of Engineering, Bangalore University, Bangalore-560 001, India

Patnaik L M
Indian Institute of Science, Bangalore, India


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