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Open Access Methodology article

The comparative analysis of statistics, based on the likelihood ratio criterion, in the automated annotation problem

Andrey M Leontovich1, Konstantin Y Tokmachev1 and Hans C van Houwelingen2*

Author Affiliations

1 Belozersky Institute of Physico-Chemical Biology, Moscow State University, Moscow, 119899, Russia

2 Department of Medical Statistics and Bioinformatics, Leiden University Medical Center, Post zone S5-P, 2300 RC Leiden, The Netherlands

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BMC Bioinformatics 2008, 9:31  doi:10.1186/1471-2105-9-31

Published: 22 January 2008



This paper discusses the problem of automated annotation. It is a continuation of the previous work on the A4-algorithm (Adaptive algorithm of automated annotation) developed by Leontovich and others.


A number of new statistics for the automated annotation of biological sequences is introduced. All these statistics are based on the likelihood ratio criterion.


Some of the statistics yield a prediction quality that is significantly higher (up to 1.5 times higher) in comparison with the results obtained with the A4-procedure.