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Related Concept Videos

Chromatin Immunoprecipitation- ChIP02:36

Chromatin Immunoprecipitation- ChIP

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Chromatin immunoprecipitation, or ChIP, is an antibody-based technique used to identify sites on DNA that bind to transcription factors of interest or histone proteins. It also helps determine the type of histone modifications such as acetylation, phosphorylation, or methylation.
Types of ChIP
ChIP can be divided into two types - X-ChIP and N-ChIP. X-ChIP involves in vivo cross-linking of histones and regulatory proteins to DNA, fragmenting the DNA by sonication, and isolating the protein-DNA...
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Spreading of Chromatin Modifications02:25

Spreading of Chromatin Modifications

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The histone proteins in the nucleosomes are post-translationally modified (PTM) to increase or decrease access to DNA. The commonly observed PTMs are methylation, acetylation, phosphorylation, and ubiquitination of lysine amino acids in the histone H3 tail region. These histone modifications have specific meaning for the cell. Hence, they are called "histone code". The protein complex involved in histone modification is termed as "reader-writer" complex.
Writers
The writer...
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Related Experiment Video

Updated: Mar 17, 2026

The ChroP Approach Combines ChIP and Mass Spectrometry to Dissect Locus-specific Proteomic Landscapes of Chromatin
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The ChroP Approach Combines ChIP and Mass Spectrometry to Dissect Locus-specific Proteomic Landscapes of Chromatin

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Exploring the Dynamic Relationship Between Cellular Metabolism and Chromatin Structure Using SILAC-Mass Spec and

P Mews1, S L Berger1

  • 1Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, United States.

Methods in Enzymology
|July 18, 2016
PubMed
Summary
This summary is machine-generated.

This study introduces a new method to track how cellular metabolism influences gene expression through chromatin structure changes. It combines sequencing and isotope tracing to understand metabolic regulation of epigenetics.

Keywords:
Cellular metabolismChIP-sequencingChromatin dynamicsEpigeneticsHistone posttranslational modificationsSILAC-mass spectrometry

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Area of Science:

  • Biochemistry
  • Epigenetics
  • Molecular Biology

Background:

  • Cellular metabolism and chromatin structure are intrinsically linked, influencing gene expression.
  • Metabolic pathways provide essential cofactors for histone modifications, acting as key regulators of chromatin.
  • Understanding the dynamic interplay between metabolism and chromatin is crucial for cellular adaptation.

Purpose of the Study:

  • To present a versatile methodology for investigating dynamic chromatin structure modulation by metabolic activity across various physiological states.
  • To explore the influence of metabolic and oncogenic mutations on the relationship between metabolism, nutrition, and chromatin regulation.

Main Methods:

  • Utilizing high-throughput sequencing to map epigenetic modifications.
  • Employing stable isotope tracing coupled with mass spectrometry to quantify chromatin modification dynamics.
  • Integrating these complementary techniques for a comprehensive analysis.

Main Results:

  • The study establishes a robust, adaptable approach for examining metabolic control of chromatin.
  • Demonstrates the utility of combining sequencing and isotope tracing for dynamic epigenetic analysis.
  • Provides a framework for dissecting how metabolic states impact chromatin structure.

Conclusions:

  • The developed two-pronged approach offers significant advantages for studying the dynamic interplay between metabolism and chromatin.
  • This methodology is particularly valuable for research involving metabolic or oncogenic mutations.
  • Facilitates a deeper understanding of how environmental and metabolic cues regulate gene expression via epigenetic mechanisms.