title: DISTILLER: a data integration framework to reveal condition dependency of complex regulons in Escherichia coli.
abstract: 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 showed the effectiveness of our approach in Escherichia coli. In addition, the condition dependency and modularity of the inferred transcriptional network was studied. Surprisingly, the level of regulatory complexity seemed lower than that which would be expected from RegulonDB, indicating that complex regulatory programs tend to decrease the degree of modularity.
authors.affiliation: Department of Electrical Engineering, Katholieke Universiteit Leuven, Leuven, Belgium. karen.lemmens@esat.kuleuven.be
authors.forename: Karen
authors.initials: K
authors.lastname: Lemmens
authors.forename: Tijl
authors.initials: T
authors.lastname: De Bie
authors.forename: Thomas
authors.initials: T
authors.lastname: Dhollander
authors.forename: Sigrid C
authors.initials: SC
authors.lastname: De Keersmaecker
authors.forename: Inge M
authors.initials: IM
authors.lastname: Thijs
authors.forename: Geert
authors.initials: G
authors.lastname: Schoofs
authors.forename: Ami
authors.initials: A
authors.lastname: De Weerdt
authors.forename: Bart
authors.initials: B
authors.lastname: De Moor
authors.forename: Jos
authors.initials: J
authors.lastname: Vanderleyden
authors.forename: Julio
authors.initials: J
authors.lastname: Collado-Vides
authors.forename: Kristof
authors.initials: K
authors.lastname: Engelen
authors.forename: Kathleen
authors.initials: K
authors.lastname: Marchal
mesh_terms: D047369:Chromatin Immunoprecipitation; D019295:Computational Biology / Q000379:methods*; D004926:Escherichia coli / Q000235:genetics*; D015964:Gene Expression Regulation, Bacterial; D053263:Gene Regulatory Networks; D018085:Regulon / Q000235:genetics*; D012984:Software; D014157:Transcription Factors
chemical_list: D014157:Transcription Factors