期刊
GENOME RESEARCH
卷 30, 期 7, 页码 1027-1039出版社
COLD SPRING HARBOR LAB PRESS, PUBLICATIONS DEPT
DOI: 10.1101/gr.257840.119
关键词
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资金
- National Instiutes of Health [AG056318, AG61796, CA208517]
- Glenn Foundation for Medical Research
- Center for Individualized Medicine, Mayo Clinic Cancer Center
- David F. and Margaret T. Grohne Cancer Immunology and Immunotherapy Program
- National Research Foundation Investigatorship award [NRFI2018-02]
- Agency for Science, Technology and Research JCO Development Program Grant [1534n00153, 1334k00083]
- Singapore National Research Foundation [NMRC/CBRG/0092/2015]
- Biomedical Research Council, Agency for Science, Technology and Research, Singapore
- Mayo Clinic Center for Biomedical Discovery
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.
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