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HiCEnterprise: identifying long range chromosomal contacts in Hi-C data
Hanna Kranas1,2, Irina Tuszynska1, Bartek Wilczynski1
1Institute of Informatics, University of Warsaw, Warsaw, Poland.
Peerj
|May 13, 2021
Summary
HiCEnterprise is a new software tool for identifying long-range chromatin contacts and chromosomal domains. This freely available resource offers statistical tests and visualization for analyzing complex genomic interactions.
Area of Science:
- Genomics
- Computational Biology
- Bioinformatics
Background:
- Advancing experimental techniques generate vast chromosomal contact data.
- Identifying long-range chromatin contacts (loops) is crucial for understanding gene regulation at various scales.
- A need exists for accessible statistical tools to analyze this data.
Purpose of the Study:
- To introduce HiCEnterprise, a freely available software tool for identifying long-range chromatin contacts.
- To enable analysis of interactions between small regions and large chromosomal domains.
- To provide robust statistical methods and visualization capabilities.
Main Methods:
- Development of HiCEnterprise software.
- Implementation of four distinct statistical tests for contact significance.
- Inclusion of functions for data input, output, and visualization.
Main Results:
- HiCEnterprise is the first freely available software for identifying long-range chromatin contacts and chromosomal domains.
- The tool supports analysis of interactions at different genomic scales.
- It provides essential functionalities for comprehensive contact analysis.
Conclusions:
- HiCEnterprise addresses the need for accessible computational tools in chromatin contact analysis.
- The software facilitates the identification and statistical assessment of genomic loops.
- It is a valuable resource for researchers studying genome organization and regulation.
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