ArticleGenome research2010
p53 binds preferentially to genomic regions with high DNA-encoded nucleosome occupancy.
Article in Genome research, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 66 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
66 citing papers in PubMed, 99 citations in OpenAlex.
- BPabZIP, a new bZIP protein motif that promotes binding near, and displacement of, nucleosomes.bioRxiv : the preprint server for biology · 2026Article
- p53 reveals principles of chromatin remodeling and enhancer activation.Nucleic acids research · 2025Article
- Nucleosome binding by TP53, TP63, and TP73 is determined by the composition, accessibility, and helical orientation of their binding sites.Genome research · 2025Article
- Harnessing p53 for targeted cancer therapy: new advances and future directions.Transcription · 2025Review
- p53motifDB: integration of genomic information and tumour suppressor p53 binding motifs.Database : the journal of biological databases and curation · 2025Article
- Nucleosome reorganisation in breast cancer tissues.Clinical epigenetics · 2024Article
- DescribePROT in 2023: more, higher-quality and experimental annotations and improved data download options.Nucleic acids research · 2024Article
- Chromatin organization drives the search mechanism of nuclear factors.Nature communications · 2023Article
- Transposable elements as tissue-specific enhancers in cancers of endodermal lineage.Nature communications · 2023Article
- Chromatin structure related to oncogenesis.Cancer science · 2023Review
- Profiling Accessible Chromatin and Nucleosomes in the Mammalian Genome.Methods in molecular biology (Clifton, N.J.) · 2023Article
- Article
- Characterization of sequence determinants of enhancer function using natural genetic variation.eLife · 2022Article
- Temporal gene regulation by p53 is associated with the rotational setting of its binding sites in nucleosomes.Cell cycle (Georgetown, Tex.) · 2021Article
- DescribePROT: database of amino acid-level protein structure and function predictions.Nucleic acids research · 2021Article
- Linker DNA and histone contributions in nucleosome binding by p53.Journal of biochemistry · 2020Article
- Pioneer Transcription Factors Initiating Gene Network Changes.Annual review of genetics · 2020Review
- Tumor suppressor p53: from engaging DNA to target gene regulation.Nucleic acids research · 2020Article
- Pioneer factors and their in vitro identification methods.Molecular genetics and genomics : MGG · 2020Review
- Gene network transitions in embryos depend upon interactions between a pioneer transcription factor and core histones.Nature genetics · 2020Article
6 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
6 authors at 2 institutions in 2 countries.
Funding
Abstract
The human transcription factor TP53 is a pivotal roadblock against cancer. A key unresolved question is how the p53 protein selects its genomic binding sites in vivo out of a large pool of potential consensus sites. We hypothesized that chromatin may play a significant role in this site-selection process. To test this, we used a custom DNA microarray to measure p53 binding at approximately 2000 sites predicted to possess high-sequence specificity, and identified both strongly bound and weakly bound sites. When placed within a plasmid, weakly bound sites become p53 responsive and regain p53 binding when stably integrated into random genomic locations. Notably, strongly bound sites reside preferentially within genomic regions whose DNA sequence is predicted to encode relatively high intrinsic nucleosome occupancy. Using in vivo nucleosome occupancy measurements under conditions where p53 is inactive, we experimentally confirmed this prediction. Furthermore, upon p53 activation, nucleosomes are partially displaced from a relatively broad region surrounding the bound p53 sites, and this displacement is rapidly reversed upon inactivation of p53. Thus, in contrast to the general assumption that transcription-factor binding is preferred in sites that have low nucleosome occupancy prior to factor activation, we find that p53 binding occurs preferentially within a chromatin context of high intrinsic nucleosome occupancy.
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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.