Literature DB >> 3078230

Linguistics of nucleotide sequences: morphology and comparison of vocabularies.

V Brendel1, J S Beckmann, E N Trifonov.   

Abstract

The concept of "words" in continuous languages devoid of blanks is introduced and an operational definition of words given. With this novel concept nucleotide sequences become object for linguistic analysis. The typical word size of the nucleotide language is found to be 3 to 5 (tri- to pentamers). Different genomes have distinct vocabularies. Comparison of these vocabularies can serve as a basis for revealing functional and evolutionary relatedness of sequences.

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Year:  1986        PMID: 3078230     DOI: 10.1080/07391102.1986.10507643

Source DB:  PubMed          Journal:  J Biomol Struct Dyn        ISSN: 0739-1102


  37 in total

1.  Whole proteome prokaryote phylogeny without sequence alignment: a K-string composition approach.

Authors:  Ji Qi; Bin Wang; Bai-Iin Hao
Journal:  J Mol Evol       Date:  2004-01       Impact factor: 2.395

2.  Statistical analysis of nucleotide sequences.

Authors:  E E Stückle; C Emmrich; U Grob; P J Nielsen
Journal:  Nucleic Acids Res       Date:  1990-11-25       Impact factor: 16.971

3.  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

4.  WORDUP: an efficient algorithm for discovering statistically significant patterns in DNA sequences.

Authors:  G Pesole; N Prunella; S Liuni; M Attimonelli; C Saccone
Journal:  Nucleic Acids Res       Date:  1992-06-11       Impact factor: 16.971

5.  "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

6.  A simple method for global sequence comparison.

Authors:  E Pizzi; M Attimonelli; S Liuni; C Frontali; C Saccone
Journal:  Nucleic Acids Res       Date:  1992-01-11       Impact factor: 16.971

7.  Assessment of inhomogeneities in an E. coli physical map.

Authors:  S Karlin; C Macken
Journal:  Nucleic Acids Res       Date:  1991-08-11       Impact factor: 16.971

Review 8.  Alignment-free genetic sequence comparisons: a review of recent approaches by word analysis.

Authors:  Oliver Bonham-Carter; Joe Steele; Dhundy Bastola
Journal:  Brief Bioinform       Date:  2013-07-31       Impact factor: 11.622

9.  Over- and underrepresentation of short DNA words in herpesvirus genomes.

Authors:  M Y Leung; G M Marsh; T P Speed
Journal:  J Comput Biol       Date:  1996       Impact factor: 1.479

10.  Different clustering of genomes across life using the A-T-C-G and degenerate R-Y alphabets: early and late signaling on genome evolution?

Authors:  V Kirzhner; A Paz; Z Volkovich; E Nevo; A Korol
Journal:  J Mol Evol       Date:  2007-03-19       Impact factor: 2.395

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