ArticleNucleic acids research2007
Genome-wide analysis of transcriptional dependence and probable target sites for Abf1 and Rap1 in Saccharomyces cerevisiae.
Article in Nucleic acids research, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 39 papers, 1 of them a synthesis that pooled it.
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
39 citing papers in PubMed, 1 synthesis or guideline pooled it, 100 citations in OpenAlex.
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- Abf1 Is an Essential Protein That Participates in Cell Cycle Progression and Subtelomeric Silencing inJournal of fungi (Basel, Switzerland) · 2021Article
- Genome-wide off-rates reveal how DNA binding dynamics shape transcription factor function.Molecular systems biology · 2020Article
- Histone exchange is associated with activator function at transcribed promoters and with repression at histone loci.Science advances · 2020Article
- Nucleosome remodeling at origins of global genome-nucleotide excision repair occurs at the boundaries of higher-order chromatin structure.Genome research · 2019Article
- Spt6 Is Required for the Fidelity of Promoter Selection.Molecular cell · 2018Article
- Article
- A global function for transcription factors in assisting RNA polymerase II termination.Transcription · 2018Review
- Abf1 and other general regulatory factors control ribosome biogenesis gene expression in budding yeast.Nucleic acids research · 2017Article
- Identification of a transcriptional activation domain in yeast repressor activator protein 1 (Rap1) using an altered DNA-binding specificity variant.The Journal of biological chemistry · 2017Article
- Multiple roles of the general regulatory factor Abf1 in yeast ribosome biogenesis.Current genetics · 2017Review
- Global genome nucleotide excision repair is organized into domains that promote efficient DNA repair in chromatin.Genome research · 2016Article
- Dynamics of Nucleosome Positioning Maturation following Genomic Replication.Cell reports · 2016Article
- Promoter architecture and transcriptional regulation of Abf1-dependent ribosomal protein genes in Saccharomyces cerevisiae.Nucleic acids research · 2016Article
- Linking replication stress with heterochromatin formation.Chromosoma · 2016Review
- Chromatin mediation of a transcriptional memory effect in yeast.G3 (Bethesda, Md.) · 2015Article
- Telomere DNA recognition in Saccharomycotina yeast: potential lessons for the co-evolution of ssDNA and dsDNA-binding proteins and their target sites.Frontiers in genetics · 2015Review
- Histone hypoacetylation-activated genes are repressed by acetyl-CoA- and chromatin-mediated mechanism.Biochimica et biophysica acta · 2014Article
- Silencing subtelomeric VSGs by Trypanosoma brucei RAP1 at the insect stage involves chromatin structure changes.Nucleic acids research · 2013Article
Corrections and comments
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
Abstract
Abf1 and Rap1 are general regulatory factors (GRFs) that contribute to transcriptional activation of a large number of genes, as well as to replication, silencing and telomere structure in yeast. In spite of their widespread roles in transcription, the scope of their functional targets genome-wide has not been previously determined. Here, we use microarrays to examine the contribution of these essential GRFs to transcription genome-wide, by using ts mutants that dissociate from their binding sites at 37 degrees C. We then combine this data with published ChIP-chip studies and motif analysis to identify probable direct targets for Abf1 and Rap1. We also identify a substantial number of genes likely to bind Rap1 or Abf1, but not affected by loss of GRF binding. Interestingly, the results strongly suggest that Rap1 can contribute to gene activation from farther upstream than can Abf1. Also, consistent with previous work, more genes that bind Abf1 are unaffected by loss of binding than those that bind Rap1. Finally, we show for several such genes that the Abf1 C-terminal region, which contains the putative activation domain, is not needed to confer this peculiar 'memory effect' that allows continued transcription after loss of Abf1 binding.
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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.