Reliability and applications of statistical methods based on oligonucleotide frequencies in bacterial and archaeal genomes.

ABSTRACT:

Background

The increasing number of sequenced prokaryotic genomes contains a wealth of genomic data that needs to be effectively analysed. A set of statistical tools exists for such analysis, but their strengths and weaknesses have not been fully explored. The statistical methods we are concerned with here are mainly used to examine similarities between archaeal and bacterial DNA from different genomes. These methods compare observed genomic frequencies of fixed-sized oligonucleotides with expected values, which can be determined by genomic nucleotide content, smaller oligonucleotide frequencies, or be based on specific statistical distributions. Advantages with these statistical methods include measurements of phylogenetic relationship with relatively small pieces of DNA sampled f

SUBMITTER: Bohlin J 

PROVIDER: S-EPMC2289816 | biostudies-literature | 2008 Feb

REPOSITORIES: biostudies-literature