ArticleBioMed research international2013
A quantitative analysis of the impact on chromatin accessibility by histone modifications and binding of transcription factors in DNase I hypersensitive sites.
Article in BioMed research international, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.
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Who cites it
7 citing papers in PubMed.
- Transcriptomic regulation of pancreatic acinar cell homeostasis and plasticity.Biochemical Society transactions · 2026Review
- An automated ATAC-seq method reveals sequence determinants of transcription factor dose response in the open chromatin.bioRxiv : the preprint server for biology · 2025Article
- The single-cell chromatin accessibility landscape in mouse perinatal testis development.eLife · 2023Article
- Computational methods and next-generation sequencing approaches to analyze epigenetics data: Profiling of methods and applications.Methods (San Diego, Calif.) · 2021Review
- DeepHistone: a deep learning approach to predicting histone modifications.BMC genomics · 2019Article
- Functional characterization of open chromatin in bidirectional promoters of rice.Scientific reports · 2016Article
- Modeling co-occupancy of transcription factors using chromatin features.Nucleic acids research · 2016Article
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Authors and funding
7 authors.
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Abstract
It is known that chromatin features such as histone modifications and the binding of transcription factors exert a significant impact on the "openness" of chromatin. In this study, we present a quantitative analysis of the genome-wide relationship between chromatin features and chromatin accessibility in DNase I hypersensitive sites. We found that these features show distinct preference to localize in open chromatin. In order to elucidate the exact impact, we derived quantitative models to directly predict the "openness" of chromatin using histone modification features and transcription factor binding features, respectively. We show that these two types of features are highly predictive for chromatin accessibility in a statistical viewpoint. Moreover, our results indicate that these features are highly redundant and only a small number of features are needed to achieve a very high predictive power. Our study provides new insights into the true biological phenomena and the combinatorial effects of chromatin features to differential DNase I hypersensitivity.
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