Novel sequence-based method for identifying transcription factor binding sites in prokaryotic genomes.

ABSTRACT:

Motivation

Computational techniques for microbial genomic sequence analysis are becoming increasingly important. With next-generation sequencing technology and the human microbiome project underway, current sequencing capacity is significantly greater than the speed at which organisms of interest can be studied experimentally. Most related computational work has been focused on sequence assembly, gene annotation and metabolic network reconstruction. We have developed a method that will primarily use available sequence data in order to determine prokaryotic transcription factor (TF) binding specificities.

Results

Specificity determining residues (critical residues) were identified from crystal structures of DNA-protein complexes and TFs with the same critical residues were gr

SUBMITTER: Sahota G 

PROVIDER: S-EPMC2981494 | biostudies-literature | 2010 Nov

REPOSITORIES: biostudies-literature