![Loading...](https://link.springer.com/static/c4a417b97a76cc2980e3c25e2271af3129e08bbe/images/pdf-preview/spacer.gif)
-
Protocol
Directed Module Detection in a Large-Scale Expression Compendium
Public online microarray databases contain tremendous amounts of expression data. Mining these data sources can provide a wealth of information on the underlying transcriptional networks. In this chapter, we i...
-
Chapter
Systems Microbiology: Gaining Insights in Transcriptional Networks
Bacteria are able to adapt to continuously changing environmental conditions. This complex cellular behavior is mediated by the underlying transcriptional network. The advent of high-throughput techniques has ...
-
Article
Open AccessDISTILLER: a data integration framework to reveal condition dependency of complex regulons in Escherichia coli
We present DISTILLER, a data integration framework for the inference of transcriptional module networks. Experimental validation of predicted targets for the well-studied fumarate nitrate reductase regulator s...
-
Article
Open AccessModuleDigger: an itemset mining framework for the detection of cis-regulatory modules
The detection of cis-regulatory modules (CRMs) that mediate transcriptional responses in eukaryotes remains a key challenge in the postgenomic era. A CRM is characterized by a set of co-occurring transcription fa...
-
Article
Open AccessInferring transcriptional modules from ChIP-chip, motif and microarray data
'ReMoDiscovery' is an intuitive algorithm to correlate regulatory programs with regulators and corresponding motifs to a set of co-expressed genes. It exploits in a concurrent way three independent data source...
-
Article
In silico identification and experimental validation of PmrAB targets in Salmonella typhimuriumby regulatory motif detection
The PmrAB (BasSR) two-component regulatory system is required for Salmonella typhimurium virulence. PmrAB-controlled modifications of the lipopolysaccharide (LPS) layer confer resistance to cationic antibiotic po...