title: RSMD-repeat searcher and motif detector.
abstract: The functionality of a gene or a protein depends on codon repeats occurring in it. As a consequence of their vitality in protein function and apparent involvement in causing diseases, an interest in these repeats has developed in recent years. The analysis of genomic and proteomic sequences to identify such repeats requires some algorithmic support from informatics level. Here, we proposed an offline stand-alone toolkit Repeat Searcher and Motif Detector (RSMD), which uncovers and employs few novel approaches in identification of sequence repeats and motifs to understand their functionality in sequence level and their disease causing tendency. The tool offers various features such as identifying motifs, repeats and identification of disease causing repeats. RSMD was designed to provide an easily understandable graphical user interface (GUI), for the tool will be predominantly accessed by biologists and various researchers in all platforms of life science. GUI was developed using the scripting language Perl and its graphical module PerlTK. RSMD covers algorithmic foundations of computational biology by combining theory with practice.
authors.affiliation: Department of Bioinformatics, School of Chemical and Biotechnology, SASTRA University, Thanjavur, Tamil Nadu 613401, India.
authors.forename: Udayakumar
authors.initials: U
authors.lastname: Mani
authors.affiliation: Department of Bioinformatics, School of Chemical and Biotechnology, SASTRA University, Thanjavur, Tamil Nadu 613401, India.
authors.forename: Vaidhyanathan
authors.initials: V
authors.lastname: Mahaganapathy
authors.affiliation: Department of Bioinformatics, School of Chemical and Biotechnology, SASTRA University, Thanjavur, Tamil Nadu 613401, India.
authors.forename: Sadhana
authors.initials: S
authors.lastname: Ravisankar
authors.affiliation: Department of Bioinformatics, School of Chemical and Biotechnology, SASTRA University, Thanjavur, Tamil Nadu 613401, India.
authors.forename: Sai Mukund
authors.initials: SM
authors.lastname: Ramakrishnan
keywords: combination algorithm; computational biology; genomic sequence; motif; proteomic sequence; repeats