ArticleMolecular biology of the cell2009
Chromatin-dependent transcription factor accessibility rather than nucleosome remodeling predominates during global transcriptional restructuring in Saccharomyces cerevisiae.
Article in Molecular biology of the cell, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 39 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
39 citing papers in PubMed, 56 citations in OpenAlex.
- Comprehensive profiling of chromatin occupancy dynamics through the cell cycle.Nucleic acids research · 2026Article
- Global histone protein surface accessibility in yeast indicates a uniformly loosely packed genome with canonical nucleosomes.Epigenetics & chromatin · 2021Article
- Interplay among ATP-Dependent Chromatin Remodelers Determines Chromatin Organisation in Yeast.Biology · 2020Review
- Role of cell-type specific nucleosome positioning in inducible activation of mammalian promoters.Nature communications · 2020Article
- Chromatin regulation and dynamics in stem cells.Current topics in developmental biology · 2020Review
- Genome-wide mapping of nucleosome positions in Saccharomyces cerevisiae in response to different nitrogen conditions.Scientific reports · 2016Article
- The ISW1 and CHD1 ATP-dependent chromatin remodelers compete to set nucleosome spacing in vivo.Nucleic acids research · 2016Article
- Regulation of chaperone binding and nucleosome dynamics by key residues within the globular domain of histone H3.Epigenetics & chromatin · 2016Article
- Nucleosome positioning in yeasts: methods, maps, and mechanisms.Chromosoma · 2015Review
- Functional roles of nucleosome stability and dynamics.Briefings in functional genomics · 2015Review
- Heavy transcription of yeast genes correlates with differential loss of histone H2B relative to H4 and queued RNA polymerases.Nucleic acids research · 2014Article
- Bacterial nucleoid-associated protein uncouples transcription levels from transcription timing.mBio · 2014Article
- RSC-dependent constructive and destructive interference between opposing arrays of phased nucleosomes in yeast.Genome research · 2014Article
- Histone hypoacetylation-activated genes are repressed by acetyl-CoA- and chromatin-mediated mechanism.Biochimica et biophysica acta · 2014Article
- Promoter-proximal transcription factor binding is transcriptionally active when coupled with nucleosome repositioning in immediate vicinity.Nucleic acids research · 2014Article
- A dynamic interplay of nucleosome and Msn2 binding regulates kinetics of gene activation and repression following stress.Nucleic acids research · 2014Article
- The yeast PHO5 promoter: from single locus to systems biology of a paradigm for gene regulation through chromatin.Nucleic acids research · 2014Review
- Global remodeling of nucleosome positions in C. elegans.BMC genomics · 2013Article
- The SWI/SNF KlSnf2 subunit controls the glucose signaling pathway to coordinate glycolysis and glucose transport in Kluyveromyces lactis.Eukaryotic cell · 2012Article
- Dynamic changes in nucleosome occupancy are not predictive of gene expression dynamics but are linked to transcription and chromatin regulators.Molecular and cellular biology · 2012Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors at 2 institutions in 1 country.
Funding
Abstract
Several well-studied promoters in yeast lose nucleosomes upon transcriptional activation and gain them upon repression, an observation that has prompted the model that transcriptional activation and repression requires nucleosome remodeling of regulated promoters. We have examined global nucleosome positioning before and after glucose-induced transcriptional reprogramming, a condition under which more than half of all yeast genes significantly change expression. The majority of induced and repressed genes exhibit no change in promoter nucleosome arrangement, although promoters that do undergo nucleosome remodeling tend to contain a TATA box. Rather, we found multiple examples where the pre-existing accessibility of putative transcription factor binding sites before glucose addition determined whether the corresponding gene would change expression in response to glucose addition. These results suggest that selection of appropriate transcription factor binding sites may be dictated to a large extent by nucleosome prepositioning but that regulation of expression through these sites is dictated not by nucleosome repositioning but by changes in transcription factor activity.
Indexed as
Identifiers
What OpenQuestion holds
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.