title: ChIP-enriched in silico targets (ChEST), a ChIP-on-chip approach applied to analyzing skeletal muscle genes.
abstract: Mapping the cis-regulatory modules (CRMs) to which bind myogenic transcription factors is an -obligatory step towards understanding gene regulatory networks governing muscle development and function. This can be achieved in silico or by chromatin immunoprecipitation (ChIP) approaches. We have developed a ChIP-enriched in silico targets (ChEST) strategy designed for mapping the CRMs by combining in silico and ChIP methods. ChEST involves a software-assisted prediction of transcription factor (TF) - specific CRMs, which are spotted to produce a computed genomic CRM microarray. In parallel, the in vivo pool of targets of a given TF is isolated by ChIP and used as a probe for hybridization with the array generated. Here we describe ChEST strategy applied to identify direct targets of Myogenic Enhancer Factor, Dmef2 in Drosophila embryos.
authors: GReD, INSERM U931, CNRS UMR6247, Faculté de Medecine, Clermont University, Clermont-Ferrand, France.
authors: Guillaume
authors: G
authors: Junion
authors: Krzysztof
authors: K
authors: Jagla
mesh_terms: D000818:Animals; D047369:Chromatin Immunoprecipitation / Q000379:methods*; D019295:Computational Biology; D015342:DNA Probes / Q000138:chemical synthesis; D004330:Drosophila / Q000235:genetics; D004625:Embryo, Nonmammalian / Q000378:metabolism; D004742:Enhancer Elements, Genetic; D020869:Gene Expression Profiling / Q000379:methods*; D018507:Gene Expression Regulation, Developmental; D018482:Muscle, Skeletal / Q000378:metabolism*; D021141:Nucleic Acid Amplification Techniques; D009693:Nucleic Acid Hybridization / Q000379:methods; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D012045:Regulatory Sequences, Nucleic Acid / Q000235:genetics*
chemical_list: D015342:DNA Probes