1. Nearest-neighbor spacing distribution of basis in some intron-less and intron-containing DNA sequences
- Author
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H. Hernández-Saldaña, M.F. Higareda, and R. A. Méndez-Sánchez
- Subjects
Genomics (q-bio.GN) ,Statistics and Probability ,Sequence ,Basis (linear algebra) ,Intron ,Condensed Matter Physics ,Quantitative Biology - Quantitative Methods ,k-nearest neighbors algorithm ,Combinatorics ,Distribution (mathematics) ,FOS: Biological sciences ,Yield (chemistry) ,Detrended fluctuation analysis ,Coding region ,Quantitative Biology - Genomics ,Quantitative Methods (q-bio.QM) ,Mathematics - Abstract
We show that the nearest neighbour distribution of distances between basis pairs of some intron-less and intron-containing coding regions are the same when a procedure, called {\em unfolding}, is applied. Such a procedure consists in separating the secular variations from the oscillatory terms. The form of the distribution obtained is quite similar to that of a random, i.e. Poissonian, sequence. This is done for the HUMBMYH7CD, DROMYONMA, HUMBMYH7 and DROMHC sequences. The first two correspond to highly coding regions while the last two correspond to non-coding regions. We also show that the distributions before the unfolding procedure depend on the secular part but, after the unfolding procedure we obtain an striking result: all distributions are similar to each other. The result becomes independent of the content of introns or the species we have chosen. This is in contradiction with the results obtained with the detrended fluctuation analysis in which the correlations yield different results for intron-less and intron-containing regions., Comment: 8 pages. elesart style.Alberto Robledo's 60th Anniversary Symposium - Nonlinearity, nonequilibrium and complexity: Questions and perspectives in statistical physics. Accepted in Physica A
- Published
- 2006
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