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Minute-Made Data Analysis: Tools for Rapid Interrogation of Hi-C Contacts
M Jordan Rowley1, Victor G Corces1
1Department of Biology, Emory University, 1510 Clifton Road NE, Atlanta, GA 30322, USA.
Molecular Cell
|October 8, 2016
Summary
Juicer and Juicebox offer fast, reliable processing for Hi-C data analysis. These tools simplify complex chromatin contact analysis into a flexible pipeline.
Area of Science:
- Genomics
- Bioinformatics
- Molecular Biology
Background:
- High-throughput chromosome conformation capture (Hi-C) experiments generate complex data.
- Analyzing Hi-C data traditionally involves multiple, often arduous, computational steps.
Purpose of the Study:
- To introduce Juicer and Juicebox, novel computational tools for Hi-C data analysis.
- To provide a streamlined and flexible pipeline for processing and visualizing Hi-C data.
Main Methods:
- Juicer: A tool for efficient Hi-C read processing and map generation.
- Juicebox: A graphical interface for dynamic browsing and analysis of chromatin contacts.
- Implementation of multiple normalization schemes and feature annotation.
Main Results:
- Demonstrated fast and reliable processing of Hi-C data.
- Enabled comprehensive analysis including read processing, normalization, and annotation.
- Facilitated intuitive visualization and exploration of 3D genome structure.
Conclusions:
- Juicer and Juicebox significantly simplify and accelerate Hi-C data analysis.
- These tools provide a robust and user-friendly platform for studying chromatin interactions.
