Literature DB >> 12875825

Mutually symmetric and complementary triplets: differences in their use distinguish systematically between coding and non-coding genomic sequences.

Christoforos Nikolaou1, Yannis Almirantis.   

Abstract

The general property of asymmetry in word use in meaningful texts written in a variety of languages, motivates a quantification of the differences in the use of mutually symmetric triplets in genomic sequences. When this is done in the three reading frames, high values found for one of them are used as indication that the sequence is coding for a protein. Moreover, a similar quantification of the differences in the use of complementary triplets is introduced, again with predictive power of the coding character of a sequence. This method reflects the non-equivalence between sense and anti-sense strand of a coding segment. In both approaches, "linguistic asymmetry" in coding sequences is related to the form of the genetic code and to the bias in codon usage and amino acid use skews.

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Year:  2003        PMID: 12875825     DOI: 10.1016/s0022-5193(03)00123-1

Source DB:  PubMed          Journal:  J Theor Biol        ISSN: 0022-5193            Impact factor:   2.691


  2 in total

1.  Measuring the coding potential of genomic sequences through a combination of triplet occurrence patterns and RNY preference.

Authors:  Christoforos Nikolaou; Yannis Almirantis
Journal:  J Mol Evol       Date:  2004-09       Impact factor: 2.395

2.  "Word" preference in the genomic text and genome evolution: different modes of n-tuplet usage in coding and noncoding sequences.

Authors:  Christoforos Nikolaou; Yannis Almirantis
Journal:  J Mol Evol       Date:  2005-07-19       Impact factor: 2.395

  2 in total

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