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A Sciarrino

Publications and source records attributed to A Sciarrino.

3 recordsLinked to original sources

Mutation model for nucleotide sequences based on crystal basis.

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.

Base Sequence↗

Universality and Shannon entropy of codon usage.

The distribution functions of codon usage probabilities, computed over all the available GenBank data for 40 eukaryotic biological species and five chloroplasts, are best fitted by the sum of a constant, an exponential, and a linear function in the rank of usage. For mitochondria the analysis is not conclusive. These functions are characterized by parameters that strongly depend on the total guanine and cytosine (GC) content of the coding regions of biological species. It is predicted that the codon usage is the same in all exonic genes with the same GC content. The Shannon entropy for codons, also strongly dependent on the exonic GC content, is computed.

Amino Acids↗

A mathematical model accounting for the organization in multiplets of the genetic code.

A model using suitable mathematical operators in the crystal basis model of the genetic code is presented. This model retains a requirement for stability of the genetic code against misreading or translation errors. The main features (including number of encoded amino-acids, nucleotide content, and synonymous codons multiplet dimension) are described for mitochondrial and eukaryotic genetic codes.

Genetic Code↗