ArticleMolecular & cellular proteomics : MCP2011
Chromatin affinity purification and quantitative mass spectrometry defining the interactome of histone modification patterns.
Article in Molecular & cellular proteomics : MCP, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 45 papers.
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45 citing papers in PubMed, 92 citations in OpenAlex.
- Post-translational modification of H2B C-terminal helix regulates nucleosome interactions and chromatin signaling.Nucleic acids research · 2025Article
- Advances in the chemical synthesis of human proteoforms.Science China. Life sciences · 2025Review
- Interactome of intact chromatosome variants with site-specifically ubiquitylated and acetylated linker histone H1.2.Nucleic acids research · 2024Article
- Chemical Biology Approaches to Identify and Profile Interactors of Chromatin Modifications.ACS chemical biology · 2023Review
- Native Mass Spectrometry at the Convergence of Structural Biology and Compositional Proteomics.Accounts of chemical research · 2022Article
- Defining Proximity Proteome of Histone Modifications by Antibody-mediated Protein A-APEX2 Labeling.Genomics, proteomics & bioinformatics · 2022Article
- Chemical biology approaches to study histone interactors.Biochemical Society transactions · 2021Review
- Site-specific ubiquitylation acts as a regulator of linker histone H1.Nature communications · 2021Article
- Quantitative Mass Spectrometry-Based Proteomics: An Overview.Methods in molecular biology (Clifton, N.J.) · 2021Review
- Analysis of protein-DNA interactions in chromatin by UV induced cross-linking and mass spectrometry.Nature communications · 2020Article
- Comprehensive nucleosome interactome screen establishes fundamental principles of nucleosome binding.Nucleic acids research · 2020Article
- Examining histone modification crosstalk using immobilized libraries established from ligation-ready nucleosomes.Chemical science · 2020Article
- Understanding the interplay between CpG island-associated gene promoters and H3K4 methylation.Biochimica et biophysica acta. Gene regulatory mechanisms · 2020Review
- Mass Spectrometry to Study Chromatin Compaction.Biology · 2020Review
- ChromID identifies the protein interactome at chromatin marks.Nature biotechnology · 2020Article
- The Use of Mononucleosome Immunoprecipitation for Analysis of Combinatorial Histone Post-translational Modifications and Purification of Nucleosome-Interacting Proteins.Frontiers in cell and developmental biology · 2020Article
- SILAC-MS Profiling of Reconstituted Human Chromatin Platforms for the Study of Transcription and RNA Regulation.Journal of proteome research · 2018Article
- Multifaceted Targeting of the Chromatin Mediates Gonadotropin-Releasing Hormone Effects on Gene Expression in the Gonadotrope.Frontiers in endocrinology · 2018Review
- Cryo-electron microscopy of chromatin biology.Acta crystallographica. Section D, Structural biology · 2017Review
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8 authors at 1 institution in 1 country.
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Abstract
DNA and histone modifications direct the functional state of chromatin and thereby the readout of the genome. Candidate approaches and histone peptide affinity purification experiments have identified several proteins that bind to chromatin marks. However, the complement of factors that is recruited by individual and combinations of DNA and histone modifications has not yet been defined. Here, we present a strategy based on recombinant, uniformly modified chromatin templates used in affinity purification experiments in conjunction with SILAC-based quantitative mass spectrometry for this purpose. On the prototypic H3K4me3 and H3K9me3 histone modification marks we compare our method with a histone N-terminal peptide affinity purification approach. Our analysis shows that only some factors associate with both, chromatin and peptide matrices but that a surprisingly large number of proteins differ in their association with these templates. Global analysis of the proteins identified implies specific domains mediating recruitment to the chromatin marks. Our proof-of-principle studies show that chromatin templates with defined modification patterns can be used to decipher how the histone code is read and translated.
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