TY  - JOUR
A1  - Xing, Qiao Rui
A1  - Farran, Chadi A El
A1  - Zeng, Ying Ying
A1  - Yi, Yao
A1  - Warrier, Tushar
A1  - Gautam, Pradeep
A1  - Collins, James J.
A1  - Xu, Jian
A1  - Dröge, Peter
A1  - Koh, Cheng-Gee
A1  - Li, Hu
A1  - Zhang, Li-Feng
A1  - Loh, Yuin-Han
T1  - Parallel bimodal single-cell sequencing of transcriptome and chromatin accessibility
Y1  - 2020/07/01 
JF  - Genome Research 
JO  - Genome Research 
SP  - 1027 
EP  - 1039 
DO  - 10.1101/gr.257840.119 
VL  - 30 
IS  - 7 
UR  - http://genome.cshlp.org/content/30/7/1027.abstract 
N2  - Joint profiling of transcriptome and chromatin accessibility within single cells allows for the deconstruction of the complex relationship between transcriptional states and upstream regulatory programs determining different cell fates. Here, we developed an automated method with high sensitivity, assay for single-cell transcriptome and accessibility regions (ASTAR-seq), for simultaneous measurement of whole-cell transcriptome and chromatin accessibility within the same single cell. To show the utility of ASTAR-seq, we profiled 384 mESCs under naive and primed pluripotent states as well as a two-cell like state, 424 human cells of various lineage origins (BJ, K562, JK1, and Jurkat), and 480 primary cord blood cells undergoing erythroblast differentiation. With the joint profiles, we configured the transcriptional and chromatin accessibility landscapes of discrete cell states, uncovered linked sets of cis-regulatory elements and target genes unique to each state, and constructed interactome and transcription factor (TF)–centered upstream regulatory networks for various cell states. 
ER  -