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lentiMPRA and MPRAflow for high-throughput functional characterization of gene regulatory elements.
Gordon MG, Inoue F, Martin B, Schubach M, Agarwal V, Whalen S, Feng S, Zhao J, Ashuach T, Ziffra R, Kreimer A, Georgakopoulos-Soares I, Yosef N, Ye CJ, Pollard KS, Shendure J, Kircher M, Ahituv N. Gordon MG, et al. Among authors: ye cj. Nat Protoc. 2020 Aug;15(8):2387-2412. doi: 10.1038/s41596-020-0333-5. Epub 2020 Jul 8. Nat Protoc. 2020. PMID: 32641802 Free PMC article.
Genetic determinants of co-accessible chromatin regions in activated T cells across humans.
Gate RE, Cheng CS, Aiden AP, Siba A, Tabaka M, Lituiev D, Machol I, Gordon MG, Subramaniam M, Shamim M, Hougen KL, Wortman I, Huang SC, Durand NC, Feng T, De Jager PL, Chang HY, Aiden EL, Benoist C, Beer MA, Ye CJ, Regev A. Gate RE, et al. Among authors: ye cj. Nat Genet. 2018 Aug;50(8):1140-1150. doi: 10.1038/s41588-018-0156-2. Epub 2018 Jul 9. Nat Genet. 2018. PMID: 29988122 Free PMC article.
Functional interpretation of single cell similarity maps.
DeTomaso D, Jones MG, Subramaniam M, Ashuach T, Ye CJ, Yosef N. DeTomaso D, et al. Among authors: ye cj. Nat Commun. 2019 Sep 26;10(1):4376. doi: 10.1038/s41467-019-12235-0. Nat Commun. 2019. PMID: 31558714 Free PMC article.
Author Correction: lentiMPRA and MPRAflow for high-throughput functional characterization of gene regulatory elements.
Gordon MG, Inoue F, Martin B, Schubach M, Agarwal V, Whalen S, Feng S, Zhao J, Ashuach T, Ziffra R, Kreimer A, Georgakopoulos-Soares I, Yosef N, Ye CJ, Pollard KS, Shendure J, Kircher M, Ahituv N. Gordon MG, et al. Among authors: ye cj. Nat Protoc. 2021 Jul;16(7):3736. doi: 10.1038/s41596-020-00422-z. Nat Protoc. 2021. PMID: 33128032 No abstract available.
SCITO-seq: single-cell combinatorial indexed cytometry sequencing.
Hwang B, Lee DS, Tamaki W, Sun Y, Ogorodnikov A, Hartoularos GC, Winters A, Yeung BZ, Nazor KL, Song YS, Chow ED, Spitzer MH, Ye CJ. Hwang B, et al. Among authors: ye cj. Nat Methods. 2021 Aug;18(8):903-911. doi: 10.1038/s41592-021-01222-3. Epub 2021 Aug 5. Nat Methods. 2021. PMID: 34354295 Free PMC article.
Single-cell eQTL mapping identifies cell type-specific genetic control of autoimmune disease.
Yazar S, Alquicira-Hernandez J, Wing K, Senabouth A, Gordon MG, Andersen S, Lu Q, Rowson A, Taylor TRP, Clarke L, Maccora K, Chen C, Cook AL, Ye CJ, Fairfax KA, Hewitt AW, Powell JE. Yazar S, et al. Among authors: ye cj. Science. 2022 Apr 8;376(6589):eabf3041. doi: 10.1126/science.abf3041. Epub 2022 Apr 8. Science. 2022. PMID: 35389779
Single-cell RNA-sequencing of peripheral blood mononuclear cells reveals widespread, context-specific gene expression regulation upon pathogenic exposure.
Oelen R, de Vries DH, Brugge H, Gordon MG, Vochteloo M; single-cell eQTLGen consortium; BIOS Consortium; Ye CJ, Westra HJ, Franke L, van der Wijst MGP. Oelen R, et al. Among authors: ye cj. Nat Commun. 2022 Jun 7;13(1):3267. doi: 10.1038/s41467-022-30893-5. Nat Commun. 2022. PMID: 35672358 Free PMC article.
Population Diversity at the Single-Cell Level.
Gordon MG, Kathail P, Choy B, Kim MC, Mazumder T, Gearing M, Ye CJ. Gordon MG, et al. Among authors: ye cj. Annu Rev Genomics Hum Genet. 2024 Aug;25(1):27-49. doi: 10.1146/annurev-genom-021623-083207. Epub 2024 Aug 6. Annu Rev Genomics Hum Genet. 2024. PMID: 38382493 Review.
Systematic decoding of cis gene regulation defines context-dependent control of the multi-gene costimulatory receptor locus in human T cells.
Mowery CT, Freimer JW, Chen Z, Casaní-Galdón S, Umhoefer JM, Arce MM, Gjoni K, Daniel B, Sandor K, Gowen BG, Nguyen V, Simeonov DR, Garrido CM, Curie GL, Schmidt R, Steinhart Z, Satpathy AT, Pollard KS, Corn JE, Bernstein BE, Ye CJ, Marson A. Mowery CT, et al. Among authors: ye cj. Nat Genet. 2024 Jun;56(6):1156-1167. doi: 10.1038/s41588-024-01743-5. Epub 2024 May 29. Nat Genet. 2024. PMID: 38811842 Free PMC article.
196 results