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1998 | 42 | 1 | 65-75
Tytuł artykułu

Applications of topology to DNA

Treść / Zawartość
Warianty tytułu
Języki publikacji
EN
Abstrakty
EN
The following is an expository article meant to give a simplified introduction to applications of topology to DNA.
Słowa kluczowe
Rocznik
Tom
42
Numer
1
Strony
65-75
Opis fizyczny
Daty
wydano
1998
Twórcy
  • Department of Mathematics, Florida State University, Tallahassee, Florida 32306, U.S.A.
  • Department of Mathematics, Florida State University, Tallahassee, Florida 32306, U.S.A.
Bibliografia
  • [KB] V. Katrich, J. Bednar, D. Michoud, R. Scharein, J. Dubochet and A. Stasiak, Geometry and physics of knots, Nature, 384 (1996), 142-145.
  • [LW] E. Lander and M. Waterman (eds.), Calculating the Secrets of Life, National Academy Press, 1995.
  • [Le] B. Lewin, Genes V, Oxford University Press, 1994.
  • [SF] J. Sambrook, E. F. Fritsch and T. Maniatis, Molecular Cloning: A Laboratory Manual, Cold Spring Harbor Laboratory Press, 1989.
  • [SK] A. Stasiak, V. Katrich, J. Bednar, D. Michoud and J. Dubochet, Electrophoretic mobility of DNA knots, Nature, 384 (1996), 122.
  • [S] D. Sumners (ed.), New Scientific Applications of Geometry and Topology, Proceedings of Symposia in Applied Math., Vol. 45, AMS, 1992.
  • [W] M. Waterman (ed.), Mathematical Methods for DNA Sequences, CRC Press, 1989.
  • [W1] J. White, Winding the double helix, in: Calculating the Secrets of Life, National Academy Press, (1995), 153-178.
  • [W2] J. White, Geomtry and topology of DNA and DNA-protein interactions, in: New Scientific Applications of Geometry and Topology, Proceedings of Symposia in Applied Math., Vol. 45, AMS, (1992), 17-37.
  • [W3] J. White, An introduction to the geometry and topolgy of DNA structure, in: Mathematical Methods for DNA Sequences, CRC Press, (1989), 225-252.
  • [KK] A. Klippel, R. Kanaar, R. Kahmann and N. Cozzarelli, Analysis of strand exchange and DNA binding of enhancer-independent Gin recombinase mutants, EMBO 12 (1993), 1047-1057.
  • [CR] J. Chen, C. Rauch, J. White, P. Englund and N. Cozzarelli, The topology of the kinetoplast DNA network, Cell 80 (1995) 61-69.
  • [S1] D. W. Sumners, Lifting the curtain, in: Calculating the Secrets of Life, National Academy Press, (1995), 202-235.
  • [S2] D. W. Sumners, Knot theory and DNA, in: New Scientific Applications of Geometry and Topology, Proceedings of Symposia in Applied Math., Vol. 45, AMS, (1992), 39-72.
  • [SE] D. W. Sumners, C. Ernst, S. Spengler and N. Cozzarelli, Analysis of the mechanisms of DNA recombination using tangles, Quarterly Review of Biophysics 28 (1995) 253-313.
  • [Bl] S. Bleiler, A note on unknotting number, Math. Proc. Camb. Phil. Soc. 96 (1984), 469-471.
  • [BZ] G. Burde and H. Zieschang, Knots, De Gruyter Studies in Math. 5, Walter de Gruyter, 1985.
  • [C] J. Conway, An enumeration of knots and links, and some of their algebraic properties, in: Computational Problems in Abstract Algebra, Pergamom Press, 1969, 329-358.
  • [DS] I. Darcy and D. Sumners, A strand passage metric for topoisomerase action, in: Knots '96, World Scientific, 1997, 267-278.
  • [DSKC] F. Dean, A. Stasiak, T. Koller and N. Cozzarelli, Duplex DNA knots produced by Escherichia coli Topoisomerase I, JBC 260 (1985), 4975-4983.
  • [Hs] T. Hsieh, Knotting of the Circular Duplex DNA by Type II DNA Topoisomerase form Drosophila melanogaster, JBC 258 (1983), 8413-8420.
  • [Mk] H. Murakami, Some metrics on classical knots, Math. Ann. 270 (1985), 35-45.
  • [Ms] K. Murasugi, On a certain numerical invariant of link type, Amer. Math. Soc. 117 (1965), 387-422.
  • [N1] Y. Nakanishi, Unknotting numbers and knot diagrams with the minimum crossings, Math. Sem. Notes 11 (1983), 257-258.
  • [N2] Y. Nakanishi, A note on unknotting number, Seminar Notes Kobe Univ. 9 (1981), 99-108.
  • [Rl] D. Rolfsen, Knots and Links, Publish or Perish, 1990.
  • [Rc] J. Roca, The mechanisms of DNA topoisomerases, TIBS 20 (1995), 156-160.
  • [RBW] J. Roca, J. Berger and J. Wang, On the simultaneous Binding of eukaryotic DNA Topoisomerase II to a pair of double-stranded DNA helices, JBC 268 (1993) 14250-14255.
  • [Rd] A. Rodriguez-Campos, DNA knotting abolishes in vitro chromatin assembly, JBC 271 (1996) 14150-14155.
  • [Sc] M. Scharlemann, Unknotting number one knots are prime, Invent. Math. 82 (1985) 37-55.
  • [T] I. Torisu, The determination of the pairs of two-bridge knots or links with Gordian distance one, Proc. Amer. Math. Soc., to appear.
  • [Wa] J. Wang, DNA topoisomerases, Sci. Am. 247 (1982), 94-109.
  • [WC] S. Wasserman and N. Cozzarelli, Supercoiled DNA-directed knotting by T4 topoisomerase, J. of Bio. Chem. 266 (1991), 20567-20573.
  • [Zh] X. Zhang, Unknotting number one knots are prime: a new proof, Proc. AMS 113 (1991), 611-612.
Typ dokumentu
Bibliografia
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bwmeta1.element.bwnjournal-article-bcpv42i1p65bwm
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