Analysis of DNA sequences CpG fine structure
Keywords:
DNA methylation, CpG sites, methylcytosine, isochor, hyston protein, CG island, intron, exon
Abstract
Numerical and graphical methods of CpG sites distribution in DNA sequences are introduced and described. Normalization of curve relative to the sequence length allows us to compare sequences by CpG accumulation characteristic and classify them by similarity of accumulation, but not only by their frequency. Using the introduced characteristics and similarity principle we show that there are differences in CpG sites accumulation inside DNA genes of organisms which differ by evolution and presence of DNA methylation. For species in which DNA methylation has no regulatory significance in imprinting processes and cell memory, the CpG sites distribution is random.
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References
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Singer M, Berg P. Geny i genomy. M.:Mir; 1998. 391p. (in Russian)
Liuin B. Geny. M.:Mir; 1987. 544p. (in Russian)
Bird A. Genes and Development. 2002;16:6-21.
Ramsahoye B, Biniszkiewicz D, Lyko F, Clark V, Bird AP, Jaenisch R. Proc. Natl. Acad. Sci. USA. 2000;97:5237-42.
Low DA, Weyand NJ, Mahan MJ. Infection and Immunity. 2001;69:7197-204.
Yoon J-H, Smith LE, Feng Z, Tang M-S. Cancer research. 2001;1:7110-7.
Bird AP. Nature. 1986;321:209-13.
Antequera F, Bird A. Proc. Natl. Acad. Sci. U.S.A. 1993;90:11995-9.
Bird AP. Nucleic acids research. 1980;8:1499-504.
Gardiner-Garden M, Frommer M. J. Mol. Biol. 1987;196:261.
Venter JC, Adams MD, Myers EW. Science. 2001;291:1304-51.
Antonarakis SE. Genome linkage scanning: Systematic or intelligent? Nature Genet. 1994;8:211-2.
Cross SH. Mamm. Genome. 2000;11:373.
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Puzyrev VP, Stepanov VA. Patologicheskaia anatomiia genoma cheloveka. Novosibirsk: Nauka; 1997. 265p. (in Russian)
Nakao M, Sasaki H. J. Biochem. 1996;120:467-73.
Zerova TE, Buzhievska TI. Genetyka i selektciia v Ukraiini na mezhi tysiacholit. Kiiyv:Logos; 2001.482-93. (in Ukrainian)
Lyon MF. Cytogenet. Cell Genet. 1998;80:133-7.
Kanaya S, Yamada Y, Kinouchi M, Kudo Y, Ikemura T. J. Mol. Evol. 2001;53:290-8.
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Hsiao K, Cheng C-HC, Fernandes IE. Proc. Natl. Acad Sci. USA. 1990;87:9265-9.
Tykosinski ML, Max EE. Nucl. Acid Res. 1984;12:4385-96.
Published
2003-06-05
Cited
How to Cite
Duplij, D. R., & Shckorbatov, Y. G. (2003). Analysis of DNA sequences CpG fine structure. Biophysical Bulletin, 2(13), 5-15. Retrieved from https://periodicals.karazin.ua/biophysvisnyk/article/view/12353
Section
Molecular biophysics
Copyright (c) 2003 Biophysical visnik
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