Academic Journal
Parallel bimodal single-cell sequencing of transcriptome and chromatin accessibility
| العنوان: | Parallel bimodal single-cell sequencing of transcriptome and chromatin accessibility |
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| المؤلفون: | Xing, Qiao Rui, Farran, Chadi A. El, Zeng, Yingying, Yi, Yao, Warrier, Tushar, Gautam, Pradeep, Collins, James J., Xu, Jian, Dröge, Peter, Koh, Cheng-Gee, Li, Hu, Zhang, Li-Feng, Loh, Yuin-Han |
| المساهمون: | School of Biological Sciences, Institute of Molecular and Cell Biology, A*STAR |
| سنة النشر: | 2020 |
| المجموعة: | DR-NTU (Digital Repository at Nanyang Technological University, Singapore) |
| مصطلحات موضوعية: | Science::Biological sciences, Cis Regulatory Element, Transcription Factor |
| الوصف: | 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. ; Agency for Science, Technology and Research (A*STAR) ; Ministry of Health (MOH) ; National Medical Research Council (NMRC) ; National Research Foundation (NRF) ; Published version ; We thank Haitong Fang, Naresh Waran Gnanasegaran, and Sudhagar Samydurai for the technical assistance. H.L. is supported by National Instiutes of Health (AG056318, AG61796, and CA208517), the Glenn Foundation for Medical Research, Mayo Clinic Center for Biomedical Discovery, Center for Individualized Medicine, Mayo Clinic Cancer Center, and the David F. and Margaret T. Grohne Cancer Immunology and Immunotherapy Program. Y.H.L. is supported by the National Research Foundation Investigatorship award (NRFI2018-02), Agency for Science, Technology and Research JCO Development Program Grant (1534n00153 and 1334k00083), and Singapore National Research Foundation under its Cooperative Basic Research grant administered by the Singapore Ministry of Health's ... |
| نوع الوثيقة: | article in journal/newspaper |
| وصف الملف: | application/pdf |
| اللغة: | English |
| تدمد: | 1088-9051 |
| Relation: | NRFI2018-02; 1534n00153; 1334k00083; NMRC/CBRG/0092/2015; Genome Research; Xing, Q. R., Farran, C. A. E., Zeng, Y., Yi, Y., Warrier, T., Gautam, P., Collins, J. J., Xu, J., Dröge, P., Koh, C., Li, H., Zhang, L. & Loh, Y. (2020). Parallel bimodal single-cell sequencing of transcriptome and chromatin accessibility. Genome Research, 30(7), 1027-1039. https://dx.doi.org/10.1101/gr.257840.119; https://hdl.handle.net/10356/148682; 2-s2.0-85089206425; 30; 1027; 1039 |
| DOI: | 10.1101/gr.257840.119 |
| الاتاحة: | https://hdl.handle.net/10356/148682 https://doi.org/10.1101/gr.257840.119 |
| Rights: | © 2020 Xing et al.; Published by Cold Spring Harbor Laboratory Press. This article, published in Genome Research, is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described at http://creativecommons.org/licenses/by-nc/4.0/. |
| رقم الانضمام: | edsbas.C230FB3C |
| قاعدة البيانات: | BASE |
Full Text Finder | تدمد: | 10889051 |
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| DOI: | 10.1101/gr.257840.119 |