RT Journal
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
JF Genome Research 
JO Genome Research 
YR 2020 
FD July 01 
VO 30 
IS 7 
SP 1027 
OP 1039 
DO 10.1101/gr.257840.119 
UL http://genome.cshlp.org/content/30/7/1027.abstract 
AB 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.