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Nat Methods. 2017 Mar;14(3):263-266. doi: 10.1038/nmeth.4155. Epub 2017 Jan 30.

Massively multiplex single-cell Hi-C.

Author information

1
Department of Genome Sciences, University of Washington, Seattle, Washington, USA.
2
Department of Pathology, University of Washington, Seattle, Washington, USA.
3
Illumina Inc., Advanced Research Group, San Diego, California, USA.
4
Department of Medicine, University of Washington, Seattle, Washington, USA.
5
Division of Hematology, University of Washington School of Medicine, Seattle, Washington, USA.
6
Institute for Stem Cell and Regenerative Medicine, University of Washington, Seattle, Washington, USA.
7
Howard Hughes Medical Institute, Seattle, Washington, USA.

Abstract

We present single-cell combinatorial indexed Hi-C (sciHi-C), a method that applies combinatorial cellular indexing to chromosome conformation capture. In this proof of concept, we generate and sequence six sciHi-C libraries comprising a total of 10,696 single cells. We use sciHi-C data to separate cells by karyotypic and cell-cycle state differences and identify cell-to-cell heterogeneity in mammalian chromosomal conformation. Our results demonstrate that combinatorial indexing is a generalizable strategy for single-cell genomics.

PMID:
28135255
PMCID:
PMC5330809
DOI:
10.1038/nmeth.4155
[Indexed for MEDLINE]
Free PMC Article

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