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Spatial maps of T cell receptors and transcriptomes reveal distinct immune niches and interactions in the adaptive immune response.
Liu S, Iorgulescu JB, Li S, Borji M, Barrera-Lopez IA, Shanmugam V, Lyu H, Morriss JW, Garcia ZN, Murray E, Reardon DA, Yoon CH, Braun DA, Livak KJ, Wu CJ, Chen F. Liu S, et al. Among authors: chen f. Immunity. 2022 Oct 11;55(10):1940-1952.e5. doi: 10.1016/j.immuni.2022.09.002. Immunity. 2022. PMID: 36223726 Free PMC article.
Massively parallel single-cell mitochondrial DNA genotyping and chromatin profiling.
Lareau CA, Ludwig LS, Muus C, Gohil SH, Zhao T, Chiang Z, Pelka K, Verboon JM, Luo W, Christian E, Rosebrock D, Getz G, Boland GM, Chen F, Buenrostro JD, Hacohen N, Wu CJ, Aryee MJ, Regev A, Sankaran VG. Lareau CA, et al. Among authors: chen f. Nat Biotechnol. 2021 Apr;39(4):451-461. doi: 10.1038/s41587-020-0645-6. Epub 2020 Aug 12. Nat Biotechnol. 2021. PMID: 32788668 Free PMC article.
RNA timestamps identify the age of single molecules in RNA sequencing.
Rodriques SG, Chen LM, Liu S, Zhong ED, Scherrer JR, Boyden ES, Chen F. Rodriques SG, et al. Among authors: chen lm, chen f. Nat Biotechnol. 2021 Mar;39(3):320-325. doi: 10.1038/s41587-020-0704-z. Epub 2020 Oct 19. Nat Biotechnol. 2021. PMID: 33077959 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.
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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