Literature DB >> 18430439

Data compression and genomes: a two-dimensional life domain map.

Giulia Menconi1, Vieri Benci, Marcello Buiatti.   

Abstract

We define the complexity of DNA sequences as the information content per nucleotide, calculated by means of some Lempel-Ziv data compression algorithm. It is possible to use the statistics of the complexity values of the functional regions of different complete genomes to distinguish among genomes of different domains of life (Archaea, Bacteria and Eukarya). We shall focus on the distribution function of the complexity of non-coding regions. We show that the three domains may be plotted in separate regions within the two-dimensional space where the axes are the skewness coefficient and the curtosis coefficient of the aforementioned distribution. Preliminary results on 15 genomes are introduced.

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Year:  2008        PMID: 18430439     DOI: 10.1016/j.jtbi.2008.03.011

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


  1 in total

1.  Differential direct coding: a compression algorithm for nucleotide sequence data.

Authors:  Gregory Vey
Journal:  Database (Oxford)       Date:  2009-09-14       Impact factor: 3.451

  1 in total

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