C3G offers Hi-C analysis to map long-range chromatin interactions, enabling researchers to explore the three-dimensional (3D) structure of the genome. By capturing spatial genome organization, Hi-C helps in understanding topologically associated domains (TADs), chromatin looping, and regulatory element interactions that influence gene expression.

C3G’s Hi-C pipeline includes:

• Preprocessing, involving alignment and filtering of read pairs to generate high-quality contact maps.
• Quality control (QC) following ENCODE standards, ensuring data reliability and reproducibility.
• TAD domain annotation, identifying regions of the genome that interact frequently and contribute to regulatory organization.
• Data visualization and integration, allowing for comparison with other genomic datasets, such as ChIP-Seq, to correlate chromatin interactions with regulatory elements.

C3G’s Hi-C expertise has contributed to integrative genomic studies, such as:

• Lalonde, Simon, et al. “Integrative analysis of vascular endothelial cell genomic features identifies AIDA as a coronary artery disease candidate gene.” Genome Biology 20.1 (2019): 1-13.

By leveraging Hi-C sequencing, researchers can decode chromatin architecture, providing crucial insights into gene regulation, enhancer-promoter interactions, and disease-associated genomic alterations.