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Molecular Biology

, Volume 34, Issue 5, pp 737–743 | Cite as

Study of local correlations in bacterial genes for use in the framework of hidden Markov models

  • A. M. Shmatkov
Genomics. Proteomics. Bioinformatics
  • 15 Downloads

Abstract

Computer-aided search for genes often relies on mathematical models based on the notion of hidden Markov chain. Here I propose using the selective correlation ratio to determine the local relationship required for compilation of such models. The case when a gene is presented as an amino acid sequence was calculated on the example of 11 annotated genomes. A number of nonexplicit relationships (presumably related to the properties of protein α-helix) have been revealed, which allows specific recommendations for constructing the models.

Key words

bacterial genome local correlations selective correlation ratio 

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Copyright information

© MAIK “Nauka/Interperiodica” 2000

Authors and Affiliations

  1. 1.Institute for Problems of MechanicsRussian Academy of SciencesMoscowRussia

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