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Computer simulation of DNA sequential correlations
Author(s) -
Borštnik B.,
Pumpernik D.,
Lukman D.
Publication year - 1997
Publication title -
international journal of quantum chemistry
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.484
H-Index - 105
eISSN - 1097-461X
pISSN - 0020-7608
DOI - 10.1002/(sici)1097-461x(1997)64:3<387::aid-qua9>3.0.co;2-s
Subject(s) - sequence (biology) , dna , obstacle , statistical physics , nucleotide , algorithm , physics , computational biology , computer science , biological system , gene , biology , genetics , political science , law
To obtain new insight into the nature of the correlations indistributions of nucleotides in DNA sequences, an efficient algorithm ispresented by means of which one can generate nucleotide sequences withprescribed correlational properties. It is demonstrated in the case ofhuman T‐cell receptor beta chain gene segment that by extracting a finitenumber of parameters from the natural sequence one can generate artificialsequences which reproduce the correct correlational properties. It is shownhow the apparent long‐range correlations, or—what isequivalent—the 1/ f form of the spectral density result dueto the arrangement of DNA segments with different functional roles whichalso differ in composition in terms of nucleotide classes. This approachenables one to get under control the impact of statistical fluctuationswhich represent a major obstacle in the analyses of finite naturalsequences. © 1997 John Wiley & Sons, Inc. Int J Quant Chem 64 : 387–392, 1997