A Method to Find Sequentially Separated Motifs in Biological Sequences (SSMBS)

Kumar, Chetan and Kumar, Nishith and Rangarajan, Sarani and Balakrishnan, Narayanaswamy and Sekar, Kanagaraj (2008) A Method to Find Sequentially Separated Motifs in Biological Sequences (SSMBS). In: 3rd IAPR International Conference on Pattern Recognition in Bioinformatics, OCT 15-17, 2008, Melbourne, Australia, pp. 13-27.

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Abstract

Sequence motifs occurring in a particular order in proteins or DNA have been proved to be of biological interest. In this paper, a new method to locate the occurrences of up to five user-defined motifs in a specified order in large proteins and in nucleotide sequence databases is proposed. It has been designed using the concept of quantifiers in regular expressions and linked lists for data storage. The application of this method includes the extraction of relevant consensus regions from biological sequences. This might be useful in clustering of protein families as well as to study the correlation between positions of motifs and their functional sites in DNA sequences.

Item Type:	Conference Paper
Publication:	Lecture Notes in Computer Science
Publisher:	Springer
Additional Information:	Copyright of this article belongs to Springer.
Keywords:	Regular expressions;protein and nucleotide sequences;sequence motifs.
Department/Centre:	Division of Interdisciplinary Sciences > Supercomputer Education & Research Centre
Date Deposited:	12 Mar 2010 09:47
Last Modified:	19 Sep 2010 05:55
URI:	http://eprints.iisc.ac.in/id/eprint/25869

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