Deconvolution of single-cell multi-omics layers reveals regulatory heterogeneity.

Nat Commun 2019 01 28;10(1):470. Epub 2019 Jan 28.

BGI-Shenzhen, Shenzhen, 518083, China.

Integrative analysis of multi-omics layers at single cell level is critical for accurate dissection of cell-to-cell variation within certain cell populations. Here we report scCAT-seq, a technique for simultaneously assaying chromatin accessibility and the transcriptome within the same single cell. We show that the combined single cell signatures enable accurate construction of regulatory relationships between cis-regulatory elements and the target genes at single-cell resolution, providing a new dimension of features that helps direct discovery of regulatory patterns specific to distinct cell identities. Moreover, we generate the first single cell integrated map of chromatin accessibility and transcriptome in early embryos and demonstrate the robustness of scCAT-seq in the precise dissection of master transcription factors in cells of distinct states. The ability to obtain these two layers of omics data will help provide more accurate definitions of "single cell state" and enable the deconvolution of regulatory heterogeneity from complex cell populations.

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Source
http://www.nature.com/articles/s41467-018-08205-7
Publisher Site
http://dx.doi.org/10.1038/s41467-018-08205-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6349937PMC
January 2019
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References

(Supplied by CrossRef)
Article in Nat. Rev. Genet.
E Shapiro et al.
Nat. Rev. Genet. 2013
Article in Science
C Zong et al.
Science 2012
Article in Cell
X Xu et al.
Cell 2012
Article in Cell
Y Hou et al.
Cell 2012
Article in Genome Res.
H Guo et al.
Genome Res. 2013
Article in Nat. Methods
F Tang et al.
Nat. Methods 2009
Article in Nat. Methods
S Picelli et al.
Nat. Methods 2013
Article in Cell
L Wen et al.
Cell 2014
Article in Nat. Biotechnol.
A Rotem et al.
Nat. Biotechnol. 2015
Article in Nature
JD Buenrostro et al.
Nature 2015
Article in Science
DA Cusanovich et al.
Science 2015

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