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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

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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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Chromatin Modification in iPS Cells01:32

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Chromatin modification alters gene expression; therefore, scientists can add histone-modifying enzymes, histone variants, and chromatin remodeling complexes to somatic cells to aid reprogramming into pluripotent stem (iPS) cells.
Compact chromatin makes reprogramming difficult. Enzymes, such as histone demethylases and acetyltransferases, are often added during reprogramming to loosen the chromatin, making the DNA more accessible to transcription factors. Molecules that inhibit histone...
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Chromatin Position Affects Gene Expression02:35

Chromatin Position Affects Gene Expression

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Chromatin is the massive complex of DNA and proteins packaged inside the nucleus. The complexity of chromatin folding and how it is packaged inside the nucleus greatly influences  access to genetic information. Generally, the nucleus' periphery is considered transcriptionally repressive, while the cell's interior is considered a transcriptionally active area. 
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Updated: Oct 4, 2025

The ChroP Approach Combines ChIP and Mass Spectrometry to Dissect Locus-specific Proteomic Landscapes of Chromatin
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Spatial-CUT&Tag: Spatially resolved chromatin modification profiling at the cellular level.

Yanxiang Deng1,2, Marek Bartosovic3, Petra Kukanja3

  • 1Department of Biomedical Engineering, Yale University, New Haven, CT 06520, USA.

Science (New York, N.Y.)
|February 10, 2022
PubMed
Summary
This summary is machine-generated.

Spatial omics advances with spatial-CUT&Tag, enabling genome-wide histone modification mapping in tissues. This technique reveals epigenetic regulation in mouse embryos and brains, offering insights into development and cell fate.

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Single-Cell Factor Localization on Chromatin using Ultra-Low Input Cleavage Under Targets and Release using Nuclease
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Chromatin Immunoprecipitation ChIP of Histone Modifications from Saccharomyces cerevisiae
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Area of Science:

  • Genomics
  • Epigenetics
  • Spatial Biology

Background:

  • Spatial omics is a rapidly advancing field in biological and biomedical research.
  • Understanding the spatial organization of epigenetic modifications is crucial for deciphering cellular functions and development.

Purpose of the Study:

  • To introduce spatial-CUT&Tag, a novel method for spatially resolved genome-wide profiling of histone modifications.
  • To demonstrate the application of spatial-CUT&Tag in mouse embryos and brains to investigate epigenetic regulation and cell patterning.

Main Methods:

  • Integration of in situ CUT&Tag chemistry with microfluidic deterministic barcoding and next-generation sequencing.
  • Application of spatial-CUT&Tag for genome-wide histone modification profiling in tissue samples.
  • Utilizing immunofluorescence imaging to identify single nuclei within 20-micrometer pixels for single-cell epigenome derivation.

Main Results:

  • Spatially resolved chromatin states were mapped in mouse embryos, revealing tissue-specific epigenetic regulations.
  • Spatial information at the tissue scale was obtained, correlating with ENCODE references.
  • Epigenetic control of cortical layer development and spatial cell-type patterning in the mouse brain was elucidated.
  • Single-cell epigenomes were successfully derived in situ from spatial profiling data.

Conclusions:

  • Spatial-CUT&Tag provides a powerful tool for high-resolution spatial epigenome profiling in tissues.
  • The method offers new opportunities to study epigenetic regulation, cell function, and fate decisions in both normal physiology and disease.
  • This technique advances the field of spatial omics by enabling detailed analysis of chromatin states within their native tissue context.