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Related Experiment Video

Updated: Dec 28, 2025

A Web Tool for Generating High Quality Machine-readable Biological Pathways

A Web Tool for Generating High Quality Machine-readable Biological Pathways

Published on: February 8, 2017

4See: A Flexible Browser to Explore 4C Data.

Yousra Ben Zouari^1,2,3,4, Angeliki Platania^1,2,3,4, Anne M Molitor^1,2,3,4

¹Institute of Genetics and Molecular and Cellular Biology (IGBMC), Illkirch, France.

Frontiers in Genetics

|February 11, 2020

Summary

This summary is machine-generated.

Identifying target genes for regulatory elements is challenging. The 4See browser simplifies visualization of circular chromosome conformation capture (4C) data, aiding promoter-enhancer communication studies.

Keywords:

4C biological replicates browser chromatin loops epigenomics quantile normalization

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Area of Science:

Genomics
Molecular Biology
Bioinformatics

Background:

Metazoan gene transcription is regulated by distal sequences.
Identifying target genes for enhancers is difficult due to distance and location.
Chromatin looping facilitates physical proximity between enhancers and target genes.

Purpose of the Study:

To present 4See, a user-friendly browser for visualizing circular chromosome conformation capture (4C) data.
To facilitate the exploration of promoter-enhancer communication and gene regulation by distal elements.
To enable efficient comparison and integration of 4C profiles with other genomic data.

Main Methods:

Utilizing circular chromosome conformation capture (4C) to study chromatin loops and gene regulation.
Developing and implementing the 4See data visualization browser.
Integrating 4C profiles with gene tracks, epigenomic data, and annotated regions.

Main Results:

4See allows flexible plotting of 4C profiles for comparison of biological replicates or experimental conditions.
The browser facilitates integration with gene tracks and epigenomic data for comprehensive analysis.
4See enables rapid data exploration with minimal computational or bioinformatics expertise.

Conclusions:

4See is a versatile tool for visualizing and analyzing 4C data.
The browser aids in understanding gene regulation by distal elements and promoter-enhancer interactions.
4See enhances the accessibility of 4C data analysis for researchers.