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Matematicheskaya Biologiya i Bioinformatika, 2016, Volume 11, Issue 2, Pages 205–213
DOI: https://doi.org/10.17537/2016.11.205
(Mi mbb257)
 

This article is cited in 1 scientific paper (total in 1 paper)

Information and Computer Technologies in Biology and Medicine

Integration of heterogeneous computing infrastructures for genome sequencing data analysis

V. A. Aulova, A. A. Klimentov, R. Yu. Mashinistova, A. V. Nedoluzhkoa, A. M. Novikova, A. A. Poydaa, I. S. Tertychnyia, A. B. Teslyuka, F. S. Sharkoa

a National Research Centre "Kurchatov Institute", Moscow, Russia
Full-text PDF (740 kB) Citations (1)
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Abstract: Recent technological achievements in Next Generation Sequencing (NGS) lead to significant increase in amounts of data which must be processed, analyzed and made remotely available to scientists. This, in turn, increased the requirements to the computing platforms used for data processing in terms of RAM and processors’ power. Entirely new approaches in organization of computations are required in order to process data efficiently. Authors of this paper have researched the possibility of adapting the methods and approaches employed in high energy physics for integration of heterogeneous computing resources into unified computing platform. Fully specified data and task management system based on computing resources of National Research Centre "Kurchatov Institute" was developed. We’ve also developed a workflow for processing genome sequencing data with PALEOMIX package and integrated it into the system. Results of the developed system's approbation on ancient mammoth DNA sequencing task have demonstrated a significant reduction in total computational time of the task.
Key words: distributed computations, supercomputers, genome sequencing.
Funding agency Grant number
Ministry of Education and Science of the Russian Federation 14.Z50.31.0024
Russian Foundation for Basic Research 16-37-00249_мол_а
Received 15.07.2016, Published 21.10.2016
Document Type: Article
UDC: 004.75
Language: Russian
Citation: V. A. Aulov, A. A. Klimentov, R. Yu. Mashinistov, A. V. Nedoluzhko, A. M. Novikov, A. A. Poyda, I. S. Tertychnyi, A. B. Teslyuk, F. S. Sharko, “Integration of heterogeneous computing infrastructures for genome sequencing data analysis”, Mat. Biolog. Bioinform., 11:2 (2016), 205–213
Citation in format AMSBIB
\Bibitem{AulKliMas16}
\by V.~A.~Aulov, A.~A.~Klimentov, R.~Yu.~Mashinistov, A.~V.~Nedoluzhko, A.~M.~Novikov, A.~A.~Poyda, I.~S.~Tertychnyi, A.~B.~Teslyuk, F.~S.~Sharko
\paper Integration of heterogeneous computing infrastructures for genome sequencing data analysis
\jour Mat. Biolog. Bioinform.
\yr 2016
\vol 11
\issue 2
\pages 205--213
\mathnet{http://mi.mathnet.ru/mbb257}
\crossref{https://doi.org/10.17537/2016.11.205}
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  • This publication is cited in the following 1 articles:
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