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Preprints of the Keldysh Institute of Applied Mathematics, 2015, 091, 15 pp. (Mi ipmp2053)  
An efficient approach to the protein structure alignment problem

M. V. Batsyn, V. A. Kalyagin, D. N. Tulyakov
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Abstract: The Protein Structure Alignment Problem (PSAP) consists in finding the best alignment of two proteins defined by their primary structures. In this paper we present an efficient algorithm for the PSAP. The computational results are provided for the popular Skolnick test set of 40 proteins and show that the suggested algorithm is more efficient than one of the fastest PSAP solvers — the ACF algorithm by Malod-Dognin et al. (2010).
Keywords: Protein alignment; branch-and-bound algorithm.
Funding agency Grant number
Russian Science Foundation 14-41-00039
The work is supported by RSF grant 14-41-00039.
Document Type: Preprint
UDC: 519.8+519.7
Language: English
Citation: M. V. Batsyn, V. A. Kalyagin, D. N. Tulyakov, “An efficient approach to the protein structure alignment problem”, Keldysh Institute preprints, 2015, 091, 15 pp.
Citation in format AMSBIB
\Bibitem{BatKalTul15}
\by M.~V.~Batsyn, V.~A.~Kalyagin, D.~N.~Tulyakov
\paper An efficient approach to the protein structure alignment problem
\jour Keldysh Institute preprints
\yr 2015
\papernumber 091
\totalpages 15
\mathnet{http://mi.mathnet.ru/ipmp2053}
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    		Препринты Института прикладной математики им. М. В. Келдыша РАН
     
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