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. 2018 Feb 22;172(5):1091-1107.e17.
doi: 10.1016/j.cell.2018.02.001.

Mapping the Mouse Cell Atlas by Microwell-Seq

Xiaoping Han  1 , Renying Wang  2 , Yincong Zhou  3 , Lijiang Fei  2 , Huiyu Sun  2 , Shujing Lai  2 , Assieh Saadatpour  4 , Ziming Zhou  2 , Haide Chen  2 , Fang Ye  2 , Daosheng Huang  5 , Yang Xu  5 , Wentao Huang  5 , Mengmeng Jiang  2 , Xinyi Jiang  2 , Jie Mao  6 , Yao Chen  7 , Chenyu Lu  8 , Jin Xie  9 , Qun Fang  10 , Yibin Wang  11 , Rui Yue  11 , Tiefeng Li  6 , He Huang  12 , Stuart H Orkin  13 , Guo-Cheng Yuan  4 , Ming Chen  3 , Guoji Guo  14
Affiliations
Free article

Mapping the Mouse Cell Atlas by Microwell-Seq

Xiaoping Han et al. Cell. .
Free article

Erratum in

  • Mapping the Mouse Cell Atlas by Microwell-Seq.
    Han X, Wang R, Zhou Y, Fei L, Sun H, Lai S, Saadatpour A, Zhou Z, Chen H, Ye F, Huang D, Xu Y, Huang W, Jiang M, Jiang X, Mao J, Chen Y, Lu C, Xie J, Fang Q, Wang Y, Yue R, Li T, Huang H, Orkin SH, Yuan GC, Chen M, Guo G. Han X, et al. Cell. 2018 May 17;173(5):1307. doi: 10.1016/j.cell.2018.05.012. Cell. 2018. PMID: 29775597 No abstract available.

Abstract

Single-cell RNA sequencing (scRNA-seq) technologies are poised to reshape the current cell-type classification system. However, a transcriptome-based single-cell atlas has not been achieved for complex mammalian systems. Here, we developed Microwell-seq, a high-throughput and low-cost scRNA-seq platform using simple, inexpensive devices. Using Microwell-seq, we analyzed more than 400,000 single cells covering all of the major mouse organs and constructed a basic scheme for a mouse cell atlas (MCA). We reveal a single-cell hierarchy for many tissues that have not been well characterized previously. We built a web-based "single-cell MCA analysis" pipeline that accurately defines cell types based on single-cell digital expression. Our study demonstrates the wide applicability of the Microwell-seq technology and MCA resource.

Keywords: Microwell-seq; cell type classification; cellular heterogeneity; cross-tissue cellular network; mammalian cell map; mouse cell atlas; scMCA analysis; single cell RNA-seq; single-cell analysis; transcriptome analysis.

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