Issues

 / 

2000

 / 

January

  

Reviews of topical problems


Order and correlations in genomic DNA sequences. The spectral approach

 a,  b
a Pushkov Institute of Terrestrial Magnetism, Ionosphere and Radio Wave Propagation, Russian Academy of Sciences, Kaluzhskoe shosse 4, Troitsk, , 108840, Russian Federation
b State Scientific Center ofthe Russian Federation Troitsk Institute for Innovation and Fusion Research, Troitsk, Moscow Region, Russian Federation

The structural analysis of genomic DNA sequences is discussed in the framework of the spectral approach, which is sufficiently universal due to the reciprocal correspondence and mutual complementarity of Fourier transform length scales. The spectral characteristics of random sequences of the same nucleotide composition possess the property of self-averaging for relatively short sequences of length M \geqslant 100-300. Comparison with the characteristics of random sequences determines the statistical significance of the structural features observed. Apart from traditional applications to the search for hidden periodicities, spectral methods are also efficient in studying mutual correlations in DNA sequences. By combining spectra for structure factors and correlation functions, not only integral correlations can be estimated but also their origin identified. Using the structural spectral entropy approach, the regularity of a sequence can be quantitatively assessed. A brief introduction to the problem is also presented and other major methods of DNA sequence analysis described.

Text can be downloaded in Russian. English translation is available on IOP Science.
PACS: 02.50.−r, 05.10.−a, 87.10.+e, 87.14.Gg (all)
DOI: 10.1070/PU2000v043n01ABEH000611
URL: https://ufn.ru/en/articles/2000/1/c/
Citation: Lobzin V V, Chechetkin V R "Order and correlations in genomic DNA sequences. The spectral approach" Phys. Usp. 43 55–78 (2000)
BibTexBibNote ® (generic)BibNote ® (RIS)MedlineRefWorks

:   ,    «     . » 170 57–81 (2000); DOI: 10.3367/UFNr.0170.200001c.0057

References (130) Cited by (40) Similar articles (20) ↓

  1. A.Yu. Grosberg “Disordered polymers40 125–158 (1997)
  2. V.I. Klyatskin, D. Gurarie “Coherent phenomena in stochastic dynamical systems42 165 (1999)
  3. V.K. Vanag “Study of spatially extended dynamical systems using probabilistic cellular automata42 413–434 (1999)
  4. F.I. Ataullakhanov, V.I. Zarnitsyna et alA new class of stopping self-sustained waves: a factor determining the spatial dynamics of blood coagulation45 619–636 (2002)
  5. V.I. Klyatskin “Clustering and diffusion of particles and passive tracer density in random hydrodynamic flows46 667–688 (2003)
  6. V.S. Anishchenko, T.E. Vadivasova et alStatistical properties of dynamical chaos48 151–166 (2005)
  7. A. Loskutov “Fascination of chaos53 1257–1280 (2010)
  8. V.F. Turchin, V.P. Kozlov, M.S. Malkevich “The use of mathematical-statistics methods in the solution of incorrectly posed problems13 681–703 (1971)
  9. D.S. Chernavskii “The origin of life and thinking from the viewpoint of modern physics43 151–176 (2000)
  10. V.A. Kovarskii “Quantum processes in biological molecules. Enzyme catalysis42 797–815 (1999)
  11. G.R. Ivanitskii, A.B. Medvinskii et alFrom Maxwell’s demon to the self-organization of mass transfer processes in living systems41 1115–1126 (1998)
  12. Yu.F. Krupyanskii, V.I. Gol’danskii “Dynamical properties and energy landscape of simple globular proteins45 1131–1151 (2002)
  13. V.N. Binhi, A.V. Savin “Effects of weak magnetic fields on biological systems: physical aspects46 259–291 (2003)
  14. V.V. Uchaikin “Self-similar anomalous diffusion and Levy-stable laws46 821–849 (2003)
  15. H.D. Abarbanel, M.I. Rabinovich et alSynchronisation in neural networks39 337–362 (1996)
  16. V.V. Uchaikin “Fractional phenomenology of cosmic ray anomalous diffusion56 1074–1119 (2013)
  17. M.D. Frank-Kamenetskii, V.V. Anshelevich, A.V. Lukashin “Polyelectrolyte model of DNA30 317–330 (1987)
  18. M.V. Vol’kenshtein “The essence of biological evolution27 515–537 (1984)
  19. B.N. Belintsev “Dissipative structures and the problem of biological pattern formation26 775–800 (1983)
  20. V.I. Klyatskin “Integral characteristics: a key to understanding structure formation in stochastic dynamic systems54 441–464 (2011)

The list is formed automatically.

© 1918–2019 Uspekhi Fizicheskikh Nauk
Email: ufn@ufn.ru Editorial office contacts About the journal Terms and conditions