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Mathematical Methods in Dna Topology: Applications to Chromosome Organization and Site-Specific Recombination

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Mathematics of DNA Structure, Function and Interactions

Part of the book series: The IMA Volumes in Mathematics and its Applications ((IMA,volume 150))

Abstract

In recent years, knot theory and low-dimensional topology have been effectively used to study the topology and geometry of DNA under different spatial constraints, and to solve the topological mechanisms of enzymes such as site-specific recombinases and topoisomerases. Through continuous collaboration and close interaction with experimental biologists, many problems approached and the solutions proposed remain relevant to the biological community, while being mathematically and computationally interesting. In this paper, we illustrate the use of mathematical and computational methods in a variety of DNA topology problems. This is by no means an exhaustive description of techniques and applications, but is rather intended to introduce the reader to the exciting applications of topology to the study of DNA. Many more examples will be found throughout this book.

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Authors and Affiliations

  1. Department of Mathematics, San Francisco State University, 94132, San Francisco, CA, USA

    Javier Arsuaga

  2. Department of Mathematics and Statistics, University of North Carolina at Charlotte, 28223, Charlotte, NC, USA

    Yuanan Diao

  3. Department of Mathematics, San Francisco State University, 94132, San Francisco, CA, USA

    Mariel Vazquez

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  1. Javier Arsuaga
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  2. Yuanan Diao
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  3. Mariel Vazquez
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Correspondence to Javier Arsuaga .

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Editors and Affiliations

  1. Dept. Pharmacology & Genome Center, University of California, Davis, E. Health Sciences Drive 451, Davis, 95616, USA

    Craig John Benham

  2. Dept. Chemistry & Biochemistry, Georgia Institute of Technology, Atlanta, 30332-0400, USA

    Stephen Harvey

  3. Dept. Chemistry & Chemical Biology, Rutgers State University of New Jersey, Taylor Rd. 610, Piscataway, 08854-8087, USA

    Wilma K. Olson

  4. Dept. Mathematics, Florida State University, Tallahassee, 32306-4510, USA

    De Witt Sumners

  5. Dept. Mathematics, University of Pittsburgh, Thackeray Hall 301, Pittsburgh, 15260, USA

    David Swigon

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Arsuaga, J., Diao, Y., Vazquez, M. (2009). Mathematical Methods in Dna Topology: Applications to Chromosome Organization and Site-Specific Recombination. In: Benham, C., Harvey, S., Olson, W., Sumners, D., Swigon, D. (eds) Mathematics of DNA Structure, Function and Interactions. The IMA Volumes in Mathematics and its Applications, vol 150. Springer, New York, NY. https://doi.org/10.1007/978-1-4419-0670-0_2

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