title: Directed module detection in a large-scale expression compendium.
abstract: 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 illustrate how the web services COLOMBOS and DISTILLER can be used to identify condition-dependent coexpression modules by exploring compendia of public expression data. COLOMBOS is designed for user-specified query-driven analysis, whereas DISTILLER generates a global regulatory network overview. The user is guided through both web services by means of a case study in which condition-dependent coexpression modules comprising a gene of interest (i.e., "directed") are identified.
authors.affiliation: Centre of Microbial and Plant Genetics, Katholieke Universiteit Leuven, Heverlee, Belgium.
authors.forename: Qiang
authors.initials: Q
authors.lastname: Fu
authors.forename: Karen
authors.initials: K
authors.lastname: Lemmens
authors.forename: Aminael
authors.initials: A
authors.lastname: Sanchez-Rodriguez
authors.forename: Inge M
authors.initials: IM
authors.lastname: Thijs
authors.forename: Pieter
authors.initials: P
authors.lastname: Meysman
authors.forename: Hong
authors.initials: H
authors.lastname: Sun
authors.forename: Ana Carolina
authors.initials: AC
authors.lastname: Fierro
authors.forename: Kristof
authors.initials: K
authors.lastname: Engelen
authors.forename: Kathleen
authors.initials: K
authors.lastname: Marchal
mesh_terms: D057225:Data Mining / Q000379:methods*; D030541:Databases, Genetic; D053263:Gene Regulatory Networks / Q000235:genetics*; D020407:Internet; D040081:Protein Array Analysis; D012984:Software; D049490:Systems Biology / Q000379:methods*