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Activity Number: 85 - SPEED: An Ensemble of Advances in Genomics and Genetics
Type: Contributed
Date/Time: Sunday, July 29, 2018 : 5:05 PM to 5:50 PM
Sponsor: Section on Statistics in Genomics and Genetics
Abstract #332548
Title: MHi-C: Robust Leveraging of Multi-Mapping Reads in Hi-C Analysis
Author(s): Ye Zheng* and Ferhat Ay and Sunduz Keles
Companies: University of Wisconsin Madison and La Jolla Institute for Allergy and Immunology and University of Wisconsin, Madison
Keywords: Multi-mapping reads; Hi-C; Hierarchical model; Novel contacts; Repetitive regions

Current Hi-C analysis approaches are unable to account for reads that align to multiple locations, and hence underestimate biological signal from repetitive regions of genomes. We developed mHi-C, a multi-read mapping strategy to probabilistically allocate Hi-C multi-reads. mHi-C exhibited superior performance over utilizing only uni-reads and heuristic approaches aimed at rescuing multi-reads on benchmarks. Specifically, mHi-C increased the sequencing depth by an average of 20% leading to higher reproducibility of contact matrices and a larger number of significant contacts across biological replicates. mHi-C also revealed biologically supported bona fide promoter-enhancer interactions and topologically associating domains involving repetitive genomic regions, thereby unlocking a previously masked portion of the genome for conformation capture studies.

Authors who are presenting talks have a * after their name.

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