Mutation model for nucleotide sequences based on crystal basis.

C Minichini; A Sciarrino

doi:10.1016/j.biosystems.2005.11.003

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Mutation model for nucleotide sequences based on crystal basis.

C Minichini·A Sciarrino

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Abstract

A nucleotide sequence is identified, using a two (four)-letter alphabet, by the the labels of a vector state of an irreducible representation of Uq-->0(sl(2)) (Uq-->0(sl(2) plus sign in circle sl(2))). A master equation for the distribution function is written, where the intensity of the one-spin flip is assumed to depend on the variation of the labels of the state. In the two-letter approximation, the numerically computed equilibrium distribution for short sequences is fitted nicely by a Yule distribution, which is the observed distribution of the ranked short oligonucleotides frequency in DNA. The four-letter alphabet description, applied to the codons, is able to reproduce the form of the fitted rank-ordered usage frequencies distribution.

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Base Sequence Codon Computer Simulation DNA DNA Mutational Analysis Genetic Variation Models, Chemical Models, Genetic Models, Statistical Molecular Sequence Data Nucleotides Sequence Alignment Sequence Analysis, DNA Journal Article

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C Minichini, A Sciarrino. 2006-01-04. Mutation model for nucleotide sequences based on crystal basis.. https://doi.org/10.1016/j.biosystems.2005.11.003

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