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Updated: May 22, 2026
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High-throughput Identification of Gene Regulatory Sequences Using Next-generation Sequencing of Circular Chromosome Conformation Capture (4C-seq)
Published on: October 5, 2018
Determining long-range chromatin interactions for selected genomic sites using 4C-seq technology: from fixation to
Erik Splinter1, Elzo de Wit, Harmen J G van de Werken
1Hubrecht Institute-KNAW, University Medical Centre Utrecht, Utrecht 3584 CT, The Netherlands.
Methods (San Diego, Calif.)
|May 22, 2012
Summary
This study details the 4C-seq protocol, a method using Chromosome Conformation Capture (3C) technology and next-generation sequencing to analyze nuclear organization with high resolution.
Area of Science:
- Molecular Biology
- Genomics
- Epigenetics
Background:
- Chromosome Conformation Capture (3C) and its derivatives are crucial for studying 3D genome organization.
- 4C-technology specifically investigates the interactions of a chosen genomic locus within the nucleus.
- Advancements in sequencing technologies enhance the sensitivity and resolution of these methods.
Purpose of the Study:
- To provide a comprehensive, step-by-step protocol for 4C-seq.
- To detail the entire workflow from sample preparation to data analysis.
- To offer background information and practical considerations for implementing 4C-seq.
Main Methods:
- The protocol outlines Chromosome Conformation Capture Circular (4C) technology.
- It integrates Illumina next-generation sequencing for data detection.
- The procedure covers template preparation through to bioinformatic analysis.
Main Results:
- The described protocol enables high-resolution investigation of nuclear organization.
- 4C-seq, utilizing next-generation sequencing, offers improved sensitivity.
- The method allows for detailed mapping of interactions around a specific genomic locus.
Conclusions:
- The 4C-seq protocol provides a robust method for exploring genome architecture.
- This technique enhances the understanding of nuclear organization and locus interactions.
- The protocol serves as a valuable resource for researchers in genomics and molecular biology.
