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Nature. 2018 Oct;562(7727):367-372. doi: 10.1038/s41586-018-0590-4. Epub 2018 Oct 3.

Single-cell transcriptomics of 20 mouse organs creates a Tabula Muris.

Collaborators (266)

Schaum N, Karkanias J, Neff NF, May AP, Quake SR, Wyss-Coray T, Darmanis S, Batson J, Botvinnik O, Chen MB, Chen S, Green F, Jones RC, Maynard A, Penland L, Pisco AO, Sit RV, Stanley GM, Webber JT, Zanini F, Baghel AS, Bakerman I, Bansal I, Berdnik D, Bilen B, Brownfield D, Cain C, Chen MB, Chen S, Cho M, Cirolia G, Conley SD, Darmanis S, Demers A, Demir K, de Morree A, Divita T, du Bois H, Dulgeroff LBT, Ebadi H, Espinoza FH, Fish M, Gan Q, George BM, Gillich A, Green F, Genetiano G, Gu X, Gulati GS, Hang Y, Hosseinzadeh S, Huang A, Iram T, Isobe T, Ives F, Jones RC, Kao KS, Karnam G, Kershner AM, Kiss BM, Kong W, Kumar ME, Lam JY, Lee DP, Lee SE, Li G, Li Q, Liu L, Lo A, Lu WJ, Manjunath A, May AP, May KL, May OL, Maynard A, McKay M, Metzger RJ, Mignardi M, Min D, Nabhan AN, Neff NF, Ng KM, Noh J, Patkar R, Peng WC, Penland L, Puccinelli R, Rulifson EJ, Schaum N, Sikandar SS, Sinha R, Sit RV, Szade K, Tan W, Tato C, Tellez K, Travaglini KJ, Tropini C, Waldburger L, van Weele LJ, Wosczyna MN, Xiang J, Xue S, Youngyunpipatkul J, Zanini F, Zardeneta ME, Zhang F, Zhou L, Bansal I, Chen S, Cho M, Cirolia G, Darmanis S, Demers A, Divita T, Ebadi H, Genetiano G, Green F, Hosseinzadeh S, Ives F, Lo A, May AP, Maynard A, McKay M, Neff NF, Penland L, Sit RV, Tan W, Waldburger L, Youngyunpipatkul J, Batson J, Botvinnik O, Castro P, Croote D, Darmanis S, DeRisi JL, Karkanias J, Pisco AO, Stanley GM, Webber JT, Zanini F, Baghel AS, Bakerman I, Batson J, Bilen B, Botvinnik O, Brownfield D, Chen MB, Darmanis S, Demir K, de Morree A, Ebadi H, Espinoza FH, Fish M, Gan Q, George BM, Gillich A, Gu X, Gulati GS, Hang Y, Huang A, Iram T, Isobe T, Karnam G, Kershner AM, Kiss BM, Kong W, Kuo CS, Lam JY, Lehallier B, Li G, Li Q, Liu L, Lu WJ, Min D, Nabhan AN, Ng KM, Nguyen PK, Patkar R, Peng WC, Penland L, Rulifson EJ, Schaum N, Sikandar SS, Sinha R, Szade K, Tan SY, Tellez K, Travaglini KJ, Tropini C, van Weele LJ, Wang BM, Wosczyna MN, Xiang J, Yousef H, Zhou L, Batson J, Botvinnik O, Chen S, Darmanis S, Green F, May AP, Maynard A, Pisco AO, Quake SR, Schaum N, Stanley GM, Webber JT, Wyss-Coray T, Zanini F, Beachy PA, Chan CKF, de Morree A, George BM, Gulati GS, Hang Y, Huang KC, Iram T, Isobe T, Kershner AM, Kiss BM, Kong W, Li G, Li Q, Liu L, Lu WJ, Nabhan AN, Ng KM, Nguyen PK, Peng WC, Rulifson EJ, Schaum N, Sikandar SS, Sinha R, Szade K, Travaglini KJ, Tropini C, Wang BM, Weinberg K, Wosczyna MN, Wu SM, Yousef H, Barres BA, Beachy PA, Chan CKF, Clarke MF, Darmanis S, Huang KC, Karkanias J, Kim SK, Krasnow MA, Kumar ME, Kuo CS, May AP, Metzger RJ, Neff NF, Nusse R, Nguyen PK, Rando TA, Sonnenburg J, Wang BM, Weinberg K, Weissman IL, Wu SM, Quake SR, Wyss-Coray T.

Abstract

Here we present a compendium of single-cell transcriptomic data from the model organism Mus musculus that comprises more than 100,000 cells from 20 organs and tissues. These data represent a new resource for cell biology, reveal gene expression in poorly characterized cell populations and enable the direct and controlled comparison of gene expression in cell types that are shared between tissues, such as T lymphocytes and endothelial cells from different anatomical locations. Two distinct technical approaches were used for most organs: one approach, microfluidic droplet-based 3'-end counting, enabled the survey of thousands of cells at relatively low coverage, whereas the other, full-length transcript analysis based on fluorescence-activated cell sorting, enabled the characterization of cell types with high sensitivity and coverage. The cumulative data provide the foundation for an atlas of transcriptomic cell biology.

PMID:
30283141
DOI:
10.1038/s41586-018-0590-4

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