title: Mapping Transcriptional Networks in Plants: Data-Driven Discovery of Novel Biological Mechanisms.
abstract: In plants, systems biology approaches have led to the generation of a variety of large data sets. Many of these data are created to elucidate gene expression profiles and their corresponding transcriptional regulatory mechanisms across a range of tissue types, organs, and environmental conditions. In an effort to map the complexity of this transcriptional regulatory control, several types of experimental assays have been used to map transcriptional regulatory networks. In this review, we discuss how these methods can be best used to identify novel biological mechanisms by focusing on the appropriate biological context. Translating network biology back to gene function in the plant, however, remains a challenge. We emphasize the need for validation and insight into the underlying biological processes to successfully exploit systems approaches in an effort to determine the emergent properties revealed by network analyses.
authors.affiliation: Department of Plant Biology and Genome Center, University of California, Davis, California 95616; email: sbrady@ucdavis.edu.
authors.forename: Allison
authors.initials: A
authors.lastname: Gaudinier
authors.affiliation: Department of Plant Biology and Genome Center, University of California, Davis, California 95616; email: sbrady@ucdavis.edu.
authors.forename: Siobhan M
authors.initials: SM
authors.lastname: Brady
mesh_terms: D018506:Gene Expression Regulation, Plant; D053263:Gene Regulatory Networks; D017343:Genes, Plant; D010641:Phenotype; D018521:Plant Physiological Phenomena; D010944:Plants / Q000235:genetics* / Q000378:metabolism; D049490:Systems Biology; D059467:Transcriptome
keywords: chromatin; genetics; regulation; systems biology; transcription factor