Comparative statistical analysis of bacteria genomes in ``word context

DOI10.1016/S0378-4371(00)00549-5MaRDI QIDQ1594624zbMATH OpenFDO

Authors O. V. Kirillova

Publication date 6 February 2001

Published in Physica A (Search for Journal in Brave)

Full work available at URL https://arxiv.org/abs/cond-mat/0010231

zbMATH Keywords

autocorrelation functionsnonrandom DNA text charactersword ranked distributions

Mathematics Subject Classification ID

Biochemistry, molecular biology (92C40) Protein sequences, DNA sequences (92D20)

Abstract: Statistical analysis of bacteria genomes texts has been performed on the basis of 20 complete genomes origin from Genebank. It has been revealed that the word ranked distributions are quite well approximated by logarithmic law. Results obtained in the absent words investigation show the considerably nonrandom character of DNA texts. In character of autocorrelation function behavior in several genomes period 3 oscillations were found. Short range autocorrelations are present in short ($n=3$) words and practically absent in longer words.

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Cites work

• Codon preference and primary sequence structure in protein-coding regions
• Hidden Markov chains and the analysis of genome structure
• On the spectral criteria of disorder in nonperiodic sequences: application to inflation models, symbolic dynamics and DNA sequences
• Stochastic models for heterogeneous DNA sequences
• Understanding long-range correlations in DNA sequences

Cited in

(8)

• Comparative analysis of bacterial essential and nonessential genes with Hurst exponent based on chaos game representation
• Words in DNA sequences: some case studies based on their frequency statistics
• Use of Mutual Information Function and Power Spectra for Analyzing the Structure of Some Prokaryotic Genomes
• A linguistic approach to classification of bacterial genomes
• Self-similarity analysis of eubacteria genome based on weighted graph
• Detection of exceptional genomic words: a comparison between species
• The mystery of two straight lines in bacterial genome statistics
• Statistical analysis of word usage in biological publications since 1965: historical delineation highlighting an emergence of function-oriented discourses in contemporary molecular and cellular biology

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