PT  - JOURNAL ARTICLE
AU  - Qiao Rui Xing
AU  - Chadi EL Farran
AU  - Yao Yi
AU  - Tushar Warrier
AU  - Pradeep Gautam
AU  - James J. Collins
AU  - Jian Xu
AU  - Hu Li
AU  - Li-Feng Zhang
AU  - Yuin-Han Loh
TI  - Parallel Bimodal Single-cell Sequencing of Transcriptome and Chromatin Accessibility
AID  - 10.1101/829960
DP  - 2019 Jan 01
TA  - bioRxiv
PG  - 829960
4099  - http://biorxiv.org/content/early/2019/11/04/829960.short
4100  - http://biorxiv.org/content/early/2019/11/04/829960.full
AB  - 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.