ArticleBiophysical journal2007
DNA compaction by the nuclear factor-Y.
Article in Biophysical journal, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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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
18 citing papers in PubMed, 35 citations in OpenAlex.
- Tethered Particle Motion Analysis of DNA-Binding Properties of Architectural Proteins.Methods in molecular biology (Clifton, N.J.) · 2024Article
- Detecting DNA Loops Using Tethered Particle Motion.Methods in molecular biology (Clifton, N.J.) · 2024Article
- Positive supercoiling favors transcription elongation through lac repressor-mediated DNA loops.Nucleic acids research · 2022Article
- Epigenetic role of the nuclear factor NF-Y on ID gene family in endometrial tissues of women with endometriosis: a case control study.Reproductive biology and endocrinology : RB&E · 2019Article
- Tethered multifluorophore motion reveals equilibrium transition kinetics of single DNA double helices.Proceedings of the National Academy of Sciences of the United States of America · 2018Article
- Single-Molecule Tethered Particle Motion: Stepwise Analyses of Site-Specific DNA Recombination.Micromachines · 2018Review
- Facilitated dissociation of transcription factors from single DNA binding sites.Proceedings of the National Academy of Sciences of the United States of America · 2017Article
- MADS domain transcription factors mediate short-range DNA looping that is essential for target gene expression in Arabidopsis.The Plant cell · 2013Article
- Article
- Regulation of major histocompatibility complex class II genes.Current opinion in immunology · 2011Review
- Single-molecule approaches to probe the structure, kinetics, and thermodynamics of nucleoprotein complexes that regulate transcription.The Journal of biological chemistry · 2010Review
- Single-molecule TPM studies on the conversion of human telomeric DNA.Biophysical journal · 2010Article
- Article
- Studying RecBCD helicase translocation along Chi-DNA using tethered particle motion with a stretching force.Biophysical journal · 2009Article
- Microarray analyses of gene expression during the Tetrahymena thermophila life cycle.PloS one · 2009Article
- Progesterone-dependent deoxyribonucleic acid looping between RUSH/SMARCA3 and Egr-1 mediates repression by c-Rel.Molecular endocrinology (Baltimore, Md.) · 2008Article
- Genome wide screens in yeast to identify potential binding sites and target genes of DNA-binding proteins.Nucleic acids research · 2008Article
- Epstein-Barr virus latency switch in human B-cells: a physico-chemical model.BMC systems biology · 2007Article
Corrections and comments
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Authors and funding
5 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The nuclear factor-Y (NF-Y), a trimeric, CCAAT-binding transcriptional activator with histone-like subunits, was until recently considered a prototypical promoter transcription factor. However, recent in vivo chromatin immunoprecipitation assays associated with microarray methodologies (chromatin immunoprecipitation on chip experiments) have indicated that a large portion of target sites (40%-50%) are located outside of core promoters. We applied the tethered particle motion technique to the major histocompatibility complex class II enhancer-promoter region to characterize i), the progressive compaction of DNA due to increasing concentrations of NF-Y, ii), the role of specific subunits and domains of NF-Y in the process, and iii), the interplay between NF-Y and the regulatory factor-X, which cooperatively binds to the X-box adjacent to the CCAAT box. Our study shows that NF-Y has histone-like activity, since it binds DNA nonspecifically with high affinity to compact it. This activity, which depends on the presence of all trimer subunits and of their glutamine-rich domains, seems to be attenuated by the transcriptional cofactor regulatory factor-X. Most importantly NF-Y-induced DNA compaction may facilitate promoter-enhancer interactions, which are known to be critical for expression regulation.
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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.