title: A comprehensive genomic binding map of gene and chromatin regulatory proteins in Saccharomyces.
abstract: Hundreds of different proteins regulate and implement transcription in Saccharomyces. Yet their interrelationships have not been investigated on a comprehensive scale. Here we determined the genome-wide binding locations of 200 transcription-related proteins, under normal and acute heat-shock conditions. This study distinguishes binding between distal versus proximal promoter regions as well as the 3' ends of genes for nearly all mRNA and tRNA genes. This study reveals (1) a greater diversity and specialization of regulation associated with the SAGA transcription pathway compared to the TFIID pathway, (2) new regulators enriched at tRNA genes, (3) a global co-occupancy network of >20,000 unique regulator combinations that show a high degree of regulatory interconnections among lowly expressed genes, (4) regulators of the SAGA pathway located largely distal to the core promoter and regulators of the TFIID pathway located proximally, and (5) distinct mobilization of SAGA- versus TFIID-linked regulators during acute heat shock.
authors.affiliation: Center for Eukaryotic Gene Regulation, Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA 16802, USA.
authors.forename: Bryan J
authors.initials: BJ
authors.lastname: Venters
authors.forename: Shinichiro
authors.initials: S
authors.lastname: Wachi
authors.forename: Travis N
authors.initials: TN
authors.lastname: Mavrich
authors.forename: Barbara E
authors.initials: BE
authors.lastname: Andersen
authors.forename: Peony
authors.initials: P
authors.lastname: Jena
authors.forename: Andrew J
authors.initials: AJ
authors.lastname: Sinnamon
authors.forename: Priyanka
authors.initials: P
authors.lastname: Jain
authors.forename: Noah S
authors.initials: NS
authors.lastname: Rolleri
authors.forename: Cizhong
authors.initials: C
authors.lastname: Jiang
authors.forename: Christine
authors.initials: C
authors.lastname: Hemeryck-Walsh
authors.forename: B Franklin
authors.initials: BF
authors.lastname: Pugh
mesh_terms: D002843:Chromatin / Q000235:genetics / Q000378:metabolism*; D047369:Chromatin Immunoprecipitation; D004268:DNA-Binding Proteins / Q000235:genetics / Q000378:metabolism*; D015966:Gene Expression Regulation, Fungal; D016681:Genome, Fungal; D011401:Promoter Regions, Genetic; D012319:RNA Polymerase II / Q000235:genetics / Q000378:metabolism; D012441:Saccharomyces cerevisiae / Q000235:genetics*; D029701:Saccharomyces cerevisiae Proteins / Q000235:genetics / Q000378:metabolism*; D035362:Transcription Factor TFIID / Q000235:genetics / Q000378:metabolism
chemical_list: D002843:Chromatin; D004268:DNA-Binding Proteins; D029701:Saccharomyces cerevisiae Proteins; D035362:Transcription Factor TFIID; D012319:RNA Polymerase II