Entangled Effects of Two Consecutive Pairs in Residues and its Use in Alignment

Toshihide Hara; Keiko Sato; Masanori Ohya

doi:10.1142/9789814343763_0010

Entangled Effects of Two Consecutive Pairs in Residues and its Use in Alignment

Toshihide Hara, Keiko Sato, Masanori Ohya

Department of Information Sciences

Research output: Chapter in Book/Report/Conference proceeding › Chapter › peer-review

Abstract

In the previous paper, 1 we showed the significant improvement of sequence alignment can be done by considering the entanglement between two consecutive pairs of residues, in which we introduced a new measure defined on compound systems of two sequences which taking entanglement. In this paper, we explain the advantage of our new measure compared with the “sum of pairs” measure as the measure often-used, and we also show the performance evaluation of our algorithm against other six alignment methods. Our alignment is available at our webpage " http://www.rs.noda.tus.ac.jp/%7Eohya-m/".

Original language	English
Title of host publication	Quantum Bio-informatics IV
Subtitle of host publication	From Quantum Information to Bio-informatics
Publisher	World Scientific Publishing Co.
Pages	129-135
Number of pages	7
ISBN (Electronic)	9789814343763
ISBN (Print)	9789814343756
DOIs	https://doi.org/10.1142/9789814343763_0010
Publication status	Published - 1 Jan 2011

Keywords

Entanglement
Sequence alignment
Sequence analysis
Transition probability

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10.1142/9789814343763_0010

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AU - Sato, Keiko

AU - Ohya, Masanori

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Y1 - 2011/1/1

N2 - In the previous paper, 1 we showed the significant improvement of sequence alignment can be done by considering the entanglement between two consecutive pairs of residues, in which we introduced a new measure defined on compound systems of two sequences which taking entanglement. In this paper, we explain the advantage of our new measure compared with the “sum of pairs” measure as the measure often-used, and we also show the performance evaluation of our algorithm against other six alignment methods. Our alignment is available at our webpage " http://www.rs.noda.tus.ac.jp/%7Eohya-m/".

AB - In the previous paper, 1 we showed the significant improvement of sequence alignment can be done by considering the entanglement between two consecutive pairs of residues, in which we introduced a new measure defined on compound systems of two sequences which taking entanglement. In this paper, we explain the advantage of our new measure compared with the “sum of pairs” measure as the measure often-used, and we also show the performance evaluation of our algorithm against other six alignment methods. Our alignment is available at our webpage " http://www.rs.noda.tus.ac.jp/%7Eohya-m/".

KW - Entanglement

KW - Sequence alignment

KW - Sequence analysis

KW - Transition probability

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BT - Quantum Bio-informatics IV

PB - World Scientific Publishing Co.

ER -

Entangled Effects of Two Consecutive Pairs in Residues and its Use in Alignment

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Keywords

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