Analysis of genomic signatures in prokaryotes using multinomial regression and hierarchical clustering.

ABSTRACT:

Background

Recently there has been an explosion in the availability of bacterial genomic sequences, making possible now an analysis of genomic signatures across more than 800 hundred different bacterial chromosomes, from a wide variety of environments.Using genomic signatures, we pair-wise compared 867 different genomic DNA sequences, taken from chromosomes and plasmids more than 100,000 base-pairs in length. Hierarchical clustering was performed on the outcome of the comparisons before a multinomial regression model was fitted. The regression model included the cluster groups as the response variable with AT content, phyla, growth temperature, selective pressure, habitat, sequence size, oxygen requirement and pathogenicity as predictors.

Results

Many significant factors wer

SUBMITTER: Bohlin J 

PROVIDER: S-EPMC2770534 | biostudies-literature | 2009 Oct

REPOSITORIES: biostudies-literature