ArticleCurrent protocols in molecular biology2015
Mapping regulatory factors by immunoprecipitation from native chromatin.
Article in Current protocols in molecular biology, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed.
- An intricate functional relationship between NuA4 and Sfp1 regulates ribosome biogenesis in response to nutrient availability.The Journal of biological chemistry · 2026Article
- Characterizing the regulatory effects of H2A.Z and SWR1-C on gene expression during hydroxyurea exposure in Saccharomyces cerevisiae.PLoS genetics · 2025Article
- Epigenomic, cistromic, and transcriptomic profiling of primary kidney tubular cells.Journal of biological methods · 2024Article
- Activity of the pleiotropic drug resistance transcription factors Pdr1p and Pdr3p is modulated by binding site flanking sequences.FEBS letters · 2024Article
- Whole-genome methods to define DNA and histone accessibility and long-range interactions in chromatin.Biochemical Society transactions · 2022Review
- The glucose-sensing transcription factor MLX balances metabolism and stress to suppress apoptosis and maintain spermatogenesis.PLoS biology · 2021Article
- Epigenetic Modulation of Radiation-Induced Diacylglycerol Kinase Alpha Expression Prevents Pro-Fibrotic Fibroblast Response.Cancers · 2021Article
- G-quadruplexes are transcription factor binding hubs in human chromatin.Genome biology · 2021Article
- Resolving noise-control conflict by gene duplication.PLoS biology · 2019Article
- RSC-Associated Subnucleosomes Define MNase-Sensitive Promoters in Yeast.Molecular cell · 2019Article
- Epigenetic control of gene regulation during development and disease: A view from the retina.Progress in retinal and eye research · 2018Review
- Transcriptional regulatory networks underlying gene expression changes in Huntington's disease.Molecular systems biology · 2018Article
- 5-hydroxymethylcytosine accumulation in postmitotic neurons results in functional demethylation of expressed genes.Proceedings of the National Academy of Sciences of the United States of America · 2017Article
- Genome-wide Mapping of Protein-DNA Interactions with ChEC-seq in Saccharomyces cerevisiae.Journal of visualized experiments : JoVE · 2017Article
- NucTools: analysis of chromatin feature occupancy profiles from high-throughput sequencing data.BMC genomics · 2017Article
- An efficient targeted nuclease strategy for high-resolution mapping of DNA binding sites.eLife · 2017Article
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5 authors.
Funding
Abstract
Occupied Regions of Genomes from Affinity-purified Naturally Isolated Chromatin (ORGANIC) is a high-resolution method that can be used to quantitatively map protein-DNA interactions with high specificity and sensitivity. This method uses micrococcal nuclease (MNase) digestion of chromatin and low-salt solubilization to preserve protein-DNA complexes, followed by immunoprecipitation and paired-end sequencing for genome-wide mapping of binding sites. In this unit, we describe methods for isolation of nuclei and MNase digestion of unfixed chromatin, immunoprecipitation of protein-DNA complexes, and high-throughput sequencing to map sites of bound factors.
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