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Holo-Seq: single-cell sequencing of holo-transcriptome.

ABSTRACT: Current single-cell RNA-seq approaches are hindered by preamplification bias, loss of strand of origin information, and the inability to observe small-RNA and mRNA dual transcriptomes. Here, we introduce a single-cell holo-transcriptome sequencing (Holo-Seq) that overcomes all three hurdles. Holo-Seq has the same quantitative accuracy and uniform coverage with a complete strand of origin information as bulk RNA-seq. Most importantly, Holo-Seq can simultaneously observe small RNAs and mRNAs in a single cell. Furthermore, we acquire small RNA and mRNA dual transcriptomes of 32 human hepatocellular carcinoma single cells, which display the genome-wide super-enhancer activity and hepatic neoplasm kinetics of these cells.

SUBMITTER: Xiao Z

PROVIDER: S-EPMC6193298 | biostudies-literature | 2018 Oct

REPOSITORIES: biostudies-literature

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Holo-Seq: single-cell sequencing of holo-transcriptome.

Xiao Zhengyun Z Cheng Guo G Jiao Yang Y Pan Chen C Li Ran R Jia Danmei D Zhu Jing J Wu Chao C Zheng Min M Jia Junling J

Genome biology 20181017 1

Current single-cell RNA-seq approaches are hindered by preamplification bias, loss of strand of origin information, and the inability to observe small-RNA and mRNA dual transcriptomes. Here, we introduce a single-cell holo-transcriptome sequencing (Holo-Seq) that overcomes all three hurdles. Holo-Seq has the same quantitative accuracy and uniform coverage with a complete strand of origin information as bulk RNA-seq. Most importantly, Holo-Seq can simultaneously observe small RNAs and mRNAs in a ...[more]

PMID: 30333049

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