Orchestrating chromosome conformation capture analysis with Bioconductor
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Abstract
Genome-wide chromatin conformation capture assays provide formidable insights into the spatial organization of genomes. However, due to the complexity of the data structure, their integration in multi-omics workflows remains challenging. We present data structures, computational methods and visualization tools available in Bioconductor to investigate Hi-C, micro-C and other 3C-related data, in R. An online book (https://bioconductor.org/books/OHCA/) further provides prospective end users with a number of workflows to process, import, analyze and visualize any type of chromosome conformation capture data.
Software
HiCoolHiCExperimentHiContactsOHCA
Cite
Serizay J, Matthey-Doret C, Bignaud A, Baudry L, Koszul R. Orchestrating chromosome conformation capture analysis with Bioconductor. Nature Communications. 2024;15(1):1072. doi:10.1038/s41467-024-44761-x
@article{serizay_natcomm_2024,
author = {Serizay, Jacques and Matthey-Doret, Cyril and Bignaud, Amaury and Baudry, Lyam and Koszul, Romain},
title = {{Orchestrating chromosome conformation capture analysis with Bioconductor}},
journal = {Nature Communications},
year = {2024},
volume = {15},
number = {1},
pages = {1072},
doi = {10.1038/s41467-024-44761-x},
url = {https://doi.org/10.1038/s41467-024-44761-x}
}