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bioRxiv · 10.1101/065052

Massively multiplex single-cell Hi-C

Vijay Ramani·Xinxian Deng·Kevin L Gunderson·Frank J Steemers·Christine M Disteche·William S Noble·Zhijun Duan·Jay Shendure
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Abstract

We present combinatorial single cell Hi-C, a novel method that leverages combinatorial cellular indexing to measure chromosome conformation in large numbers of single cells. In this proof-of-concept, we generate and sequence combinatorial single cell Hi-C libraries for two mouse and four human cell types, comprising a total of 9,316 single cells across 5 experiments. We demonstrate the utility of single-cell Hi-C data in separating different cell types, identify previously uncharacterized cell-to-cell heterogeneity in the conformational properties of mammalian chromosomes, and demonstrate that combinatorial indexing is a generalizable molecular strategy for single-cell genomics.

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Vijay Ramani, Xinxian Deng, Kevin L Gunderson, Frank J Steemers, Christine M Disteche, William S Noble, Zhijun Duan, Jay Shendure. 2016-07-23. Massively multiplex single-cell Hi-C. https://doi.org/10.1101/065052

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