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Updated: Feb 7, 2026

Genome-wide Snapshot of Chromatin Regulators and States in Xenopus Embryos by ChIP-Seq
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Genome-wide Snapshot of Chromatin Regulators and States in Xenopus Embryos by ChIP-Seq

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ChIP-Sequencing in Xenopus Embryos.

Saartje Hontelez1, Ila van Kruijsbergen1, Gert Jan C Veenstra2

  • 1Radboud University, Department of Molecular Developmental Biology, Radboud Institute for Molecular Life Sciences, Faculty of Science, 6500 HB Nijmegen, The Netherlands.

Cold Spring Harbor Protocols
|July 26, 2018
PubMed
Summary
This summary is machine-generated.

This study presents a chromatin immunoprecipitation followed by deep sequencing (ChIP-seq) protocol for mapping genome-wide DNA-protein interactions. The method efficiently captures epitopes from small embryo samples, aiding in understanding epigenetic regulation during development.

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Area of Science:

  • Molecular Biology
  • Epigenetics
  • Developmental Biology

Background:

  • Chromatin immunoprecipitation followed by deep sequencing (ChIP-seq) is crucial for mapping genome-wide DNA-protein interactions.
  • Understanding these interactions is key to deciphering the transcriptional state and epigenetic memory of cells.
  • These DNA-protein interactions are highly dynamic during embryonic development.

Purpose of the Study:

  • To provide a detailed, step-by-step protocol for ChIP-seq.
  • To enable the analysis of dynamic changes in DNA-protein binding during embryogenesis.
  • To optimize ChIP-seq for small embryo samples.

Main Methods:

  • The protocol involves cross-linking protein epitopes to genomic DNA.
  • DNA is sheared, and fragments bound by specific antibodies are captured.
  • Genomic loci are identified through deep sequencing.

Main Results:

  • The developed ChIP-seq protocol efficiently captures target epitopes.
  • The method is suitable for analyzing samples from small embryos.
  • Genome-wide profiles of histone modifications and DNA-protein interactions can be generated.

Conclusions:

  • This ChIP-seq protocol facilitates detailed analysis of dynamic epigenetic changes during embryogenesis.
  • It provides insights into cellular developmental potential and epigenetic memory.
  • The optimized method supports research on gene regulation in developmental contexts.