African Journal of
Biotechnology

  • Abbreviation: Afr. J. Biotechnol.
  • Language: English
  • ISSN: 1684-5315
  • DOI: 10.5897/AJB
  • Start Year: 2002
  • Published Articles: 12487

Full Length Research Paper

BengaSaVex: A new computational genetic sequence extraction tool for DNA repeats

OLUWAGBEMI, Oluseun Olugbenga*
  • OLUWAGBEMI, Oluseun Olugbenga*
  • Johns Hopkins Bloomberg School of Public Health, Johns Hopkins University, Baltimore, MD 21205, United States of America; Bioinformatics Unit, Department of Computer and Information Sciences, School of Natural and Applied Science, College of Science and Technology, P.M.B 1023 Covenant University, Ogun State, Nigeria, West Africa.
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IMOLORHE, Samuel
  • IMOLORHE, Samuel
  • Bioinformatics Unit, Department of Computer and Information Sciences, School of Natural and Applied Science, College of Science and Technology, P.M.B 1023 Covenant University, Ogun State, Nigeria, West Africa.
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AGOZIE, Victor Okechukwu
  • AGOZIE, Victor Okechukwu
  • Bioinformatics Unit, Department of Computer and Information Sciences, School of Natural and Applied Science, College of Science and Technology, P.M.B 1023 Covenant University, Ogun State, Nigeria, West Africa.
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  •  Received: 18 May 2012
  •  Accepted: 16 November 2012
  •  Published: 21 May 2014

Abstract

The scourge of infectious diseases is one of the problems contending with humanity. All infectious diseases are caused by pathogens. A major problem in biological research is the creation of enormous and redundant amounts of genomic data. From this large volume of generated data, biologists select a subset of each sequence known as DNA nucleotide subsequences “words”, for extended scientific analysis. Computational biology aids this pruning process by providing computerized tools to generate vital information with biological significance from these data. This research aimed to develop new tools for extracting DNA repeats from the gene sequences and also to perform a comparative analysis with existing tools having similar or closely-related functions. We were able to develop BengaSaVex (GBenga Samuel Victor genetic sequence extraction tool) and provide a sequential in-silico genetic-sequence-filtering functionality to identify repeated DNA nucleotide subsequences within the genes of some microorganisms, evaluated the potential benefits and applications of identifying such repeated sequences, and finally, performed an in-silico comparative analysis between BengaSaVex and tandem repeat finder.

 

Key words: BengaSaVex, DNA, repetitive sequence, in-silico analysis, computational genomics.

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This article is published under the terms of the Creative Commons Attribution License 4.0

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