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Computational Methods for the Analysis of Primate Mobile Elements

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Genetic Variation

Part of the book series: Methods in Molecular Biology ((MIMB,volume 628))

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Abstract

Transposable elements (TE), defined as discrete pieces of DNA that can move from one site to another site in genomes, represent significant components of eukaryotic genomes, including primates. Comparative genome-wide analyses have revealed the considerable structural and functional impact of TE families on primate genomes. Insights into these questions have come in part from the development of computational methods that allow detailed and reliable identification, annotation, and evolutionary analyses of the many TE families that populate primate genomes. Here, we present an overview of these computational methods and describe efficient data mining strategies for providing a comprehensive picture of TE biology in newly available genome sequences.

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Acknowledgments

Our research is supported by National Science Foundation BCS-0218338 (MAB) and EPS-0346411 (MAB), National Institutes of Health RO1 GM59290 (MAB) and PO1 AG022064 (MAB), and the State of Louisiana Board of Regents Support Fund (MAB). RC is supported by a Young Investigator ATIP award from the Centre National de la Recherche Scientifique (CNRS).

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Authors and Affiliations

  1. Laboratoire Ecologie, Evolution et Symbiose, CNRS UMR 6556, Universitè de Poitiers, Poitiers, France

    Richard Cordaux

  2. Department of Biological Sciences, Biological Computation and Visualization Center, Center for BioModular Multi-Scale Systems, Louisiana State University, Baton Rouge, LA, USA

    Shurjo K. Sen, Miriam K. Konkel & Mark A. Batzer

Authors
  1. Richard Cordaux
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  2. Shurjo K. Sen
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  3. Miriam K. Konkel
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  4. Mark A. Batzer
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Correspondence to Mark A. Batzer .

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Editors and Affiliations

  1. Medicines Research Centre, GlaxoSmithKline R&D Limited, Gunnels Wood Road, Stevenage, Hertfordshire, SG12NY, United Kingdom

    Michael R. Barnes

  2. Institute of Psychiatry, Social, Genetic & Developmental, King's College, Denmark Hill 111, London, SE58AF, United Kingdom

    Gerome Breen

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Cordaux, R., Sen, S.K., Konkel, M.K., Batzer, M.A. (2010). Computational Methods for the Analysis of Primate Mobile Elements. In: Barnes, M., Breen, G. (eds) Genetic Variation. Methods in Molecular Biology, vol 628. Humana Press, Totowa, NJ. https://doi.org/10.1007/978-1-60327-367-1_8

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  • DOI: https://doi.org/10.1007/978-1-60327-367-1_8

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  • Publisher Name: Humana Press, Totowa, NJ

  • Print ISBN: 978-1-60327-366-4

  • Online ISBN: 978-1-60327-367-1

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