ArticleMolecular cell2011
The specificity and topology of chromatin interaction pathways in yeast.
Article in Molecular cell, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 159 papers.
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Who cites it
159 citing papers in PubMed.
- Transcriptomic shift in ethanol and amino acid metabolic genes regulated by Med15 during alcoholic fermentation.Microbial genomics · 2026Article
- Yeast Rpd3L histone deacetylase couples nutrient shifts to genome-wide chromatin reprogramming.Cell reports · 2026Article
- Epigenome regulators imbue a single eukaryotic promoter with diverse gene expression dynamics.iScience · 2026Article
- Trans-histone crosstalk establishes distinct H3K79 methylation zones with differential transcriptional functions.Nucleic acids research · 2026Article
- CUT&tag analysis reveals a crucial role of H3K4 trimethylation occupancy in cold-related genes by cold stress on cotton.BMC plant biology · 2026Article
- Genome-wide nucleosome and transcription factor responses to genetic perturbations reveal chromatin-mediated mechanisms of transcriptional regulation.Genome research · 2026Article
- Set1-dependent H3K4 methylation is essential for sustained gene expression at newly activated loci.Molecules and cells · 2026Article
- SET-1-mediated H3K4me3 modification regulates catalase-3 expression in Neurospora crassa.Current genetics · 2025Article
- Systematic genetic perturbation reveals principles underpinning robustness of the epigenetic regulatory network.Nucleic acids research · 2025Article
- Nutrient starvation-induced Hda1C rewiring: coordinated regulation of transcription and translation.Nucleic acids research · 2025Article
- The transcriptional coordination of functional gene clusters is dependent on multiple chromatin remodelers in a haploid strain of the budding yeast,Frontiers in fungal biology · 2025Article
- Characterizing the regulatory effects of H2A.Z and SWR1-C on gene expression during hydroxyurea exposure in Saccharomyces cerevisiae.PLoS genetics · 2025Article
- Truncating the spliceosomal 'rope protein' Prp45 results in Htz1 dependent phenotypes.RNA biology · 2024Article
- ISW1a modulates cohesin distribution in centromeric and pericentromeric regions.Nucleic acids research · 2023Article
- The structure of the NuA4-Tip60 complex reveals the mechanism and importance of long-range chromatin modification.Nature structural & molecular biology · 2023Article
- A transcriptional cofactor regulatory network for the C. elegans intestine.G3 (Bethesda, Md.) · 2023Article
- Diverse and dynamic forms of gene regulation by the S. cerevisiae histone methyltransferase Set1.Current genetics · 2023Review
- Article
- The TORC1 activates Rpd3L complex to deacetylate Ino80 and H2A.Z and repress autophagy.Science advances · 2023Article
- Set1 regulates telomere function via H3K4 methylation-dependent and -independent pathways and calibrates the abundance of telomere maintenance factors.Molecular biology of the cell · 2023Article
99 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
20 authors.
Funding
Abstract
Packaging of DNA into chromatin has a profound impact on gene expression. To understand how changes in chromatin influence transcription, we analyzed 165 mutants of chromatin machinery components in Saccharomyces cerevisiae. mRNA expression patterns change in 80% of mutants, always with specific effects, even for loss of widespread histone marks. The data are assembled into a network of chromatin interaction pathways. The network is function based, has a branched, interconnected topology, and lacks strict one-to-one relationships between complexes. Chromatin pathways are not separate entities for different gene sets, but share many components. The study evaluates which interactions are important for which genes and predicts additional interactions, for example between Paf1C and Set3C, as well as a role for Mediator in subtelomeric silencing. The results indicate the presence of gene-dependent effects that go beyond context-dependent binding of chromatin factors and provide a framework for understanding how specificity is achieved through regulating chromatin.
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