ArticleGenome research2013
PUB-NChIP--"in vivo biotinylation" approach to study chromatin in proximity to a protein of interest.
Article in Genome research, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed, 27 citations in OpenAlex.
- Detection of Recombinant Proteins SOX2 and OCT4 Interacting in HEK293T Cells Using Real-Time Quantitative PCR.Life (Basel, Switzerland) · 2022Article
- Generation of Peptides for Highly Efficient Proximity Utilizing Site-Specific Biotinylation in Cells.Life (Basel, Switzerland) · 2022Article
- Proximity labeling for investigating protein-protein interactions.Methods in cell biology · 2022Article
- In Vivo Quantitative Estimation of DNA-Dependent Interaction of Sox2 and Oct4 Using BirA-Catalyzed Site-Specific Biotinylation.Biomolecules · 2020Article
- Proximity Labeling Techniques to Study Chromatin.Frontiers in genetics · 2020Review
- Article
- Localized protein biotinylation at DNA damage sites identifies ZPET, a repressor of homologous recombination.Genes & development · 2019Article
- Topokaryotyping demonstrates single cell variability and stress dependent variations in nuclear envelope associated domains.Nucleic acids research · 2018Article
- Histone H4K20 methylation mediated chromatin compaction threshold ensures genome integrity by limiting DNA replication licensing.Nature communications · 2018Article
- Filling the Void: Proximity-Based Labeling of Proteins in Living Cells.Trends in cell biology · 2016Review
- Signaling Over Distances.Molecular & cellular proteomics : MCP · 2016Review
- Protein Neighbors and Proximity Proteomics.Molecular & cellular proteomics : MCP · 2015Review
- Marked by association: techniques for proximity-dependent labeling of proteins in eukaryotic cells.Cellular and molecular life sciences : CMLS · 2013Review
- Proteomic characterization of novel histone post-translational modifications.Epigenetics & chromatin · 2013Article
Corrections and comments
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Authors and funding
10 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We have developed an approach termed PUB-NChIP (proximity utilizing biotinylation with native ChIP) to purify and study the protein composition of chromatin in proximity to a nuclear protein of interest. It is based on coexpression of (1) a protein of interest, fused with the bacterial biotin ligase BirA, together with (2) a histone fused to a biotin acceptor peptide (BAP), which is specifically biotinylated by BirA-fusion in the proximity of the protein of interest. Using the RAD18 protein as a model, we demonstrate that the RAD18-proximal chromatin is enriched in some H4 acetylated species. Moreover, the RAD18-proximal chromatin containing a replacement histone H2AZ has a different pattern of H4 acetylation. Finally, biotin pulse-chase experiments show that the H4 acetylation pattern starts to resemble the acetylation pattern of total H4 after the proximity of chromatin to RAD18 has been lost.
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