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bioRxiv · 10.1101/829960

Parallel Bimodal Single-cell Sequencing of Transcriptome and Chromatin Accessibility

Xing, Q. R.·Farran, C. E.·Yi, Y.·Warrier, T.·Gautam, P.·Collins, J.·Xu, J.·Li, H.·Zhang, L.-F.·Loh, Y.-H.
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Abstract

We developed ASTAR-Seq (Assay for Single-cell Transcriptome and Accessibility Regions) integrated with automated microfluidic chips, which allows for parallel sequencing of transcriptome and chromatin accessibility within the same single-cell. Using ASTAR-Seq, we profiled 192 mESCs cultured in serum+LIF and 2i medium, 424 human cell lines including BJ, K562, JK1, and Jurkat, and 480 primary cells undergoing erythroblast differentiation. Integrative analysis using Coupled NMF identified the distinct sub-populations and uncovered sets of regulatory regions and the respective target genes determining their distinctions. Analysis of epigenetic regulomes further unravelled the key transcription factors responsible for the heterogeneity observed.

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Xing, Q. R., Farran, C. E., Yi, Y., Warrier, T., Gautam, P., Collins, J., Xu, J., Li, H., Zhang, L.-F., Loh, Y.-H.. 2019-11-04. Parallel Bimodal Single-cell Sequencing of Transcriptome and Chromatin Accessibility. https://doi.org/10.1101/829960

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