ArticleJournal of proteome research2014
Discovery of Chromatin-Associated Proteins via Sequence-Specific Capture and Mass Spectrometric Protein Identification in Saccharomyces cerevisiae.
Article in Journal of proteome research, 2014. 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.
- qChIP-MS reveals the local chromatin composition by label-free quantitative proteomics.Nature communications · 2026Article
- Cardiac enhancers: Gateway to the regulatory mechanisms of heart regeneration.Seminars in cell & developmental biology · 2025Review
- Review
- Proximity Labeling in Plants.Annual review of plant biology · 2023Review
- TINC- A Method to Dissect Regulatory Complexes at Single-Locus Resolution- Reveals an Extensive Protein Complex at the Nanog Promoter.Stem cell reports · 2020Article
- Purification and enrichment of specific chromatin loci.Nature methods · 2020Review
- Recent advances in proximity-based labeling methods for interactome mapping.F1000Research · 2019Review
- Adaptation of Hybridization Capture of Chromatin-associated Proteins for Proteomics to Mammalian Cells.Journal of visualized experiments : JoVE · 2018Article
- Elucidating the in vivo interactome of HIV-1 RNA by hybridization capture and mass spectrometry.Scientific reports · 2017Article
- Elucidating Protein-DNA Interactions in Human Alphoid Chromatin via Hybridization Capture and Mass Spectrometry.Journal of proteome research · 2017Article
- Mass Spectrometry-Based Tools to Characterize DNA-Protein Cross-Linking by Bis-Electrophiles.Basic & clinical pharmacology & toxicology · 2017Review
- Multiplexed Sequence-Specific Capture of Chromatin and Mass Spectrometric Discovery of Associated Proteins.Analytical chemistry · 2017Article
- Determination of local chromatin composition by CasID.Nucleus (Austin, Tex.) · 2016Article
- HyCCAPP as a tool to characterize promoter DNA-protein interactions in Saccharomyces cerevisiae.Genomics · 2016Article
- Formaldehyde crosslinking: a tool for the study of chromatin complexes.The Journal of biological chemistry · 2015Review
- Multiplexed programmable release of captured DNA.Chembiochem : a European journal of chemical biology · 2014Article
- Measuring the formaldehyde Protein-DNA cross-link reversal rate.Analytical chemistry · 2014Article
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Authors and funding
9 authors.
Funding
Abstract
DNA-protein interactions play critical roles in the control of genome expression and other fundamental processes. An essential element in understanding how these systems function is to identify their molecular components. We present here a novel strategy, Hybridization Capture of Chromatin Associated Proteins for Proteomics (HyCCAPP), to identify proteins that are interacting with any given region of the genome. This technology identifies and quantifies the proteins that are specifically interacting with a genomic region of interest by sequence-specific hybridization capture of the target region from in vivo cross-linked chromatin, followed by mass spectrometric identification and quantification of associated proteins. We demonstrate the utility of HyCCAPP by identifying proteins associated with three multicopy and one single-copy loci in yeast. In each case, a locus-specific pattern of target-associated proteins was revealed. The binding of previously unknown proteins was confirmed by ChIP in 11 of 17 cases. The identification of many previously known proteins at each locus provides strong support for the ability of HyCCAPP to correctly identify DNA-associated proteins in a sequence-specific manner, while the discovery of previously unknown proteins provides new biological insights into transcriptional and regulatory processes at the target locus.
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