Virtual Footprint - bacterial regulon analyzer

Version 3.0 Virtual Footprint logo

Short Introduction

Virtual Footprint is a new software suite for recognizing single or composite DNA patterns. It was especially designed to analyze transcription factor binding sites in whole bacterial genomes and their underlying regulatory networks. A pattern can consist of up to two subpatterns separated by a variable spacer region.
Virtual Footprint can deal with three types of subpatterns: Position Weight Matrices, IUPAC Code and Regular Expressions

Analyses There are two types of analyses available:
	Analysis of a whole prokaryotic genome with one regulator pattern
	Analysis of a promoter region with several regulator patterns
The most striking features: Large library of bacterial position weight matrices derived from the PRODORIC database Analysis of whole prokaryotic genomes and defintion of regulons Visualization of genomic results in the interactive genome browser GBpro Hyperlinks to the PRODORIC database Phylogenetic footprinting of obtained matches (Regulog Analysis)

Please cite Virtual Footprint and results obtained by the use of Virtual Footprint as:

PUBMED:
Münch, R., Hiller, K., Grote, A., Scheer, M., Klein, J., Schobert, M. & Jahn D. (2005)
Virtual Footprint and PRODORIC: an integrative framework for regulon prediction in prokaryotes.
Bioinformatics 21, 4187-4189.