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  Methods of Combinatorial Optimization to Reveal Factors Affecting Gene Length

Bolshoy, A., & Tatarinova, T. (2012). Methods of Combinatorial Optimization to Reveal Factors Affecting Gene Length. Bioinformatics and Biology Insights, 6, 317-327. doi:10.4137/BBI.S10525.

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Item Permalink: http://hdl.handle.net/11858/00-001M-0000-000E-E886-4 Version Permalink: http://hdl.handle.net/11858/00-001M-0000-000E-E887-2
Genre: Journal Article

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Bolshoy.pdf (Publisher version), 646KB
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2012
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© the author(s), publisher and licensee Libertas Academica Ltd. This is an open access article. Unrestricted non-commercial use is permitted provided the original work is properly cited.
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 Creators:
Bolshoy, Alexander1, Author              
Tatarinova, Tatiana2, Author
Affiliations:
1Dept. of Computational Molecular Biology (Head: Martin Vingron), Max Planck Institute for Molecular Genetics, Max Planck Society, Berlin, Germany, ou_1433547              
2Computational Biology Research Group, University of Glamorgan, Pontypridd, CF371HR, Wales, UK, ou_persistent22              

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Free keywords: adaptation, evolution of prokaryotes, orthologs, machine learning, dimension-reduction techniques, factor analysis, clustering, rating, ranking
 Abstract: In this paper we present a novel method for genome ranking according to gene lengths. The main outcomes described in this paper are the following: the formulation of the genome ranking problem, presentation of relevant approaches to solve it, and the demonstration of preliminary results from prokaryotic genomes ordering. Using a subset of prokaryotic genomes, we attempted to uncover factors affecting gene length. We have demonstrated that hyperthermophilic species have shorter genes as compared with mesophilic organisms, which probably means that environmental factors affect gene length. Moreover, these preliminary results show that environmental factors group together in ranking evolutionary distant species.

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Language(s): eng - English
 Dates: 2012-12-10
 Publication Status: Published online
 Pages: -
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 Table of Contents: -
 Rev. Method: Peer
 Identifiers: DOI: 10.4137/BBI.S10525
 Degree: -

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Title: Bioinformatics and Biology Insights
Source Genre: Journal
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Pages: - Volume / Issue: 6 Sequence Number: - Start / End Page: 317 - 327 Identifier: -