Expansion of tandem repeats and oligomer clustering in coding and noncoding DNA sequences

Sergey V. Buldyrev, Nikolay Dokholyan, Shlomo Havlin, H. Eugene Stanley, Rachel H.R. Stanley

Research output: Contribution to journalConference article

6 Citations (Scopus)

Abstract

We review recent studies of distribution of dimeric tandem repeats and short oligomer clustering in DNA sequences. We find that distribution of dimeric tandem repeats in coding DNA is exponential, while in noncoding DNA it often has long power-law tails. We explain this phenomenon using mutation models based on random multiplicative processes. We also develop a clustering measure based on percolation theory that quantifies the degree of clustering of short oligomers. We find that mono-, di-, and tetramers cluster more in noncoding DNA than in coding DNA. However trimers have some degree of clustering in coding DNA and noncoding DNA. We relate this phenomena to modes of tandem repeat expansion.

Original languageEnglish (US)
Pages (from-to)19-32
Number of pages14
JournalPhysica A: Statistical Mechanics and its Applications
Volume273
Issue number1-2
DOIs
StatePublished - Nov 1 1999
EventProceedings of the 1999 13th Max Born Symposium on 'Statistical Physics in Biology: Perspectives in DNA Analysis, Population Dynamics and Ageing' - Wroclaw, Poland
Duration: May 26 1999May 30 1999

Fingerprint

oligomers
DNA Sequence
coding
deoxyribonucleic acid
Coding
Clustering
expansion
Percolation Theory
Tail
Multiplicative
Power Law
Mutation
Quantify
Model-based
random processes
mutations
trimers

All Science Journal Classification (ASJC) codes

  • Statistics and Probability
  • Condensed Matter Physics

Cite this

Buldyrev, Sergey V. ; Dokholyan, Nikolay ; Havlin, Shlomo ; Stanley, H. Eugene ; Stanley, Rachel H.R. / Expansion of tandem repeats and oligomer clustering in coding and noncoding DNA sequences. In: Physica A: Statistical Mechanics and its Applications. 1999 ; Vol. 273, No. 1-2. pp. 19-32.
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Expansion of tandem repeats and oligomer clustering in coding and noncoding DNA sequences. / Buldyrev, Sergey V.; Dokholyan, Nikolay; Havlin, Shlomo; Stanley, H. Eugene; Stanley, Rachel H.R.

In: Physica A: Statistical Mechanics and its Applications, Vol. 273, No. 1-2, 01.11.1999, p. 19-32.

Research output: Contribution to journalConference article

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