ArticleMolecular cell2009
Interaction of transcriptional regulators with specific nucleosomes across the Saccharomyces genome.
Article in Molecular cell, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 86 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
86 citing papers in PubMed, 124 citations in OpenAlex.
- BRD4: From molecular understanding to therapeutics development.Molecular cell · 2026Review
- Native nucleosome-positioning elements as alternatives to the 601 sequence for nucleosome repositioning studies.Nucleic acids research · 2025Article
- H2A.Z deposition by the SWR complex is stimulated by polyadenine DNA sequences in nucleosomes.PLoS biology · 2025Article
- Humanized Candida and NanoBiT Assays Expedite Discovery of Bdf1 Bromodomain Inhibitors With Antifungal Potential.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Article
- ATAC and SAGA histone acetyltransferase modules facilitate transcription factor binding to nucleosomes independent of their acetylation activity.Nucleic acids research · 2025Article
- Nucleosomal DNA has topological memory.Nature communications · 2024Article
- A genome-wide comprehensive analysis of nucleosome positioning in yeast.PLoS computational biology · 2024Article
- Reb1, Cbf1, and Pho4 Bias Histone Sliding and Deposition Away from Their Binding Sites.Molecular and cellular biology · 2022Article
- Gds1 Interacts with NuA4 To Promote H4 Acetylation at Ribosomal Protein Genes.Molecular and cellular biology · 2022Article
- Pioneer factors in development and cancer.iScience · 2021Review
- Structure and Function of Chromatin Remodelers.Journal of molecular biology · 2021Review
- Article
- The RSC complex remodels nucleosomes in transcribed coding sequences and promotes transcription in Saccharomyces cerevisiae.Genetics · 2021Article
- Pioneer Transcription Factors Initiating Gene Network Changes.Annual review of genetics · 2020Review
- The specificity of H2A.Z occupancy in the yeast genome and its relationship to transcription.Current genetics · 2020Review
- Actin R256 Mono-methylation Is a Conserved Post-translational Modification Involved in Transcription.Cell reports · 2020Article
- Specialized RSC: Substrate Specificities for a Conserved Chromatin Remodeler.BioEssays : news and reviews in molecular, cellular and developmental biology · 2020Article
- Inhibition of transcription leads to rewiring of locus-specific chromatin proteomes.Genome research · 2020Article
- Chromatin Fiber Invasion and Nucleosome Displacement by the Rap1 Transcription Factor.Molecular cell · 2020Article
- Rap1-mediated nucleosome displacement can regulate gene expression in senescent cells without impacting the pace of senescence.Aging cell · 2020Article
26 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors at 1 institution in 1 country.
Funding
Abstract
A canonical nucleosome architecture around promoters establishes the context in which proteins regulate gene expression. Whether gene regulatory proteins that interact with nucleosomes are selective for individual nucleosome positions across the genome is not known. Here, we examine on a genomic scale several protein-nucleosome interactions, including those that (1) bind histones (Bdf1/SWR1 and Srm1), (2) bind specific DNA sequences (Rap1 and Reb1), and (3) potentially collide with nucleosomes during transcription (RNA polymerase II). We find that the Bdf1/SWR1 complex forms a dinucleosome complex that is selective for the +1 and +2 nucleosomes of active genes. Rap1 selectively binds to its cognate site on the rotationally exposed first and second helical turn of nucleosomal DNA. We find that a transcribing RNA polymerase creates a delocalized state of resident nucleosomes. These findings suggest that nucleosomes around promoter regions have position-specific functions and that some gene regulators have position-specific nucleosomal interactions.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.