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Dissecting the immune suppressive human prostate tumor microenvironment via integrated single-cell and spatial transcriptomic analyses.
Hirz T, Mei S, Sarkar H, Kfoury Y, Wu S, Verhoeven BM, Subtelny AO, Zlatev DV, Wszolek MW, Salari K, Murray E, Chen F, Macosko EZ, Wu CL, Scadden DT, Dahl DM, Baryawno N, Saylor PJ, Kharchenko PV, Sykes DB. Hirz T, et al. Among authors: chen f. Nat Commun. 2023 Feb 7;14(1):663. doi: 10.1038/s41467-023-36325-2. Nat Commun. 2023. PMID: 36750562 Free PMC article.
In situ genome sequencing resolves DNA sequence and structure in intact biological samples.
Payne AC, Chiang ZD, Reginato PL, Mangiameli SM, Murray EM, Yao CC, Markoulaki S, Earl AS, Labade AS, Jaenisch R, Church GM, Boyden ES, Buenrostro JD, Chen F. Payne AC, et al. Among authors: chen f. Science. 2021 Feb 26;371(6532):eaay3446. doi: 10.1126/science.aay3446. Epub 2020 Dec 31. Science. 2021. PMID: 33384301 Free PMC article.
Robust decomposition of cell type mixtures in spatial transcriptomics.
Cable DM, Murray E, Zou LS, Goeva A, Macosko EZ, Chen F, Irizarry RA. Cable DM, et al. Among authors: chen f. Nat Biotechnol. 2022 Apr;40(4):517-526. doi: 10.1038/s41587-021-00830-w. Epub 2021 Feb 18. Nat Biotechnol. 2022. PMID: 33603203 Free PMC article.
Compressed sensing for highly efficient imaging transcriptomics.
Cleary B, Simonton B, Bezney J, Murray E, Alam S, Sinha A, Habibi E, Marshall J, Lander ES, Chen F, Regev A. Cleary B, et al. Among authors: chen f. Nat Biotechnol. 2021 Aug;39(8):936-942. doi: 10.1038/s41587-021-00883-x. Epub 2021 Apr 15. Nat Biotechnol. 2021. PMID: 33859401 Free PMC article.
Molecular logic of cellular diversification in the mouse cerebral cortex.
Di Bella DJ, Habibi E, Stickels RR, Scalia G, Brown J, Yadollahpour P, Yang SM, Abbate C, Biancalani T, Macosko EZ, Chen F, Regev A, Arlotta P. Di Bella DJ, et al. Among authors: chen f. Nature. 2021 Jul;595(7868):554-559. doi: 10.1038/s41586-021-03670-5. Epub 2021 Jun 23. Nature. 2021. PMID: 34163074 Free PMC article.
Joint single-cell measurements of nuclear proteins and RNA in vivo.
Chung H, Parkhurst CN, Magee EM, Phillips D, Habibi E, Chen F, Yeung BZ, Waldman J, Artis D, Regev A. Chung H, et al. Among authors: chen f. Nat Methods. 2021 Oct;18(10):1204-1212. doi: 10.1038/s41592-021-01278-1. Epub 2021 Oct 4. Nat Methods. 2021. PMID: 34608310 Free PMC article.
Dissecting mammalian spermatogenesis using spatial transcriptomics.
Chen H, Murray E, Sinha A, Laumas A, Li J, Lesman D, Nie X, Hotaling J, Guo J, Cairns BR, Macosko EZ, Cheng CY, Chen F. Chen H, et al. Among authors: chen f. Cell Rep. 2021 Nov 2;37(5):109915. doi: 10.1016/j.celrep.2021.109915. Cell Rep. 2021. PMID: 34731600 Free PMC article.
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