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Epigenetic and transcriptomic characterization reveals progression markers and essential pathways in clear cell renal cell carcinoma.
Wu Y, Terekhanova NV, Caravan W, Naser Al Deen N, Lal P, Chen S, Mo CK, Cao S, Li Y, Karpova A, Liu R, Zhao Y, Shinkle A, Strunilin I, Weimholt C, Sato K, Yao L, Serasanambati M, Yang X, Wyczalkowski M, Zhu H, Zhou DC, Jayasinghe RG, Mendez D, Wendl MC, Clark D, Newton C, Ruan Y, Reimers MA, Pachynski RK, Kinsinger C, Jewell S, Chan DW, Zhang H, Chaudhuri AA, Chheda MG, Humphreys BD, Mesri M, Rodriguez H, Hsieh JJ, Ding L, Chen F. Wu Y, et al. Among authors: ruan y. Nat Commun. 2023 Mar 27;14(1):1681. doi: 10.1038/s41467-023-37211-7. Nat Commun. 2023. PMID: 36973268 Free PMC article.
Nuclear pore protein NUP210 depletion suppresses metastasis through heterochromatin-mediated disruption of tumor cell mechanical response.
Amin R, Shukla A, Zhu JJ, Kim S, Wang P, Tian SZ, Tran AD, Paul D, Cappell SD, Burkett S, Liu H, Lee MP, Kruhlak MJ, Dwyer JE, Simpson RM, Hager GL, Ruan Y, Hunter KW. Amin R, et al. Among authors: ruan y. Nat Commun. 2021 Dec 13;12(1):7216. doi: 10.1038/s41467-021-27451-w. Nat Commun. 2021. PMID: 34903738 Free PMC article.
Multiplex chromatin interactions with single-molecule precision.
Zheng M, Tian SZ, Capurso D, Kim M, Maurya R, Lee B, Piecuch E, Gong L, Zhu JJ, Li Z, Wong CH, Ngan CY, Wang P, Ruan X, Wei CL, Ruan Y. Zheng M, et al. Among authors: ruan x, ruan y. Nature. 2019 Feb;566(7745):558-562. doi: 10.1038/s41586-019-0949-1. Epub 2019 Feb 18. Nature. 2019. PMID: 30778195 Free PMC article.
Super-enhancers delineate disease-associated regulatory nodes in T cells.
Vahedi G, Kanno Y, Furumoto Y, Jiang K, Parker SC, Erdos MR, Davis SR, Roychoudhuri R, Restifo NP, Gadina M, Tang Z, Ruan Y, Collins FS, Sartorelli V, O'Shea JJ. Vahedi G, et al. Among authors: ruan y. Nature. 2015 Apr 23;520(7548):558-62. doi: 10.1038/nature14154. Epub 2015 Feb 16. Nature. 2015. PMID: 25686607 Free PMC article.
Chromatin connectivity maps reveal dynamic promoter-enhancer long-range associations.
Zhang Y, Wong CH, Birnbaum RY, Li G, Favaro R, Ngan CY, Lim J, Tai E, Poh HM, Wong E, Mulawadi FH, Sung WK, Nicolis S, Ahituv N, Ruan Y, Wei CL. Zhang Y, et al. Among authors: ruan y. Nature. 2013 Dec 12;504(7479):306-310. doi: 10.1038/nature12716. Epub 2013 Nov 10. Nature. 2013. PMID: 24213634 Free PMC article.
CTCF-mediated functional chromatin interactome in pluripotent cells.
Handoko L, Xu H, Li G, Ngan CY, Chew E, Schnapp M, Lee CW, Ye C, Ping JL, Mulawadi F, Wong E, Sheng J, Zhang Y, Poh T, Chan CS, Kunarso G, Shahab A, Bourque G, Cacheux-Rataboul V, Sung WK, Ruan Y, Wei CL. Handoko L, et al. Among authors: ruan y. Nat Genet. 2011 Jun 19;43(7):630-8. doi: 10.1038/ng.857. Nat Genet. 2011. PMID: 21685913 Free PMC article.
Systematic evaluation of factors influencing ChIP-seq fidelity.
Chen Y, Negre N, Li Q, Mieczkowska JO, Slattery M, Liu T, Zhang Y, Kim TK, He HH, Zieba J, Ruan Y, Bickel PJ, Myers RM, Wold BJ, White KP, Lieb JD, Liu XS. Chen Y, et al. Among authors: ruan y. Nat Methods. 2012 Jun;9(6):609-14. doi: 10.1038/nmeth.1985. Epub 2012 Apr 22. Nat Methods. 2012. PMID: 22522655 Free PMC article.
Ultrastructural visualization of 3D chromatin folding using volume electron microscopy and DNA in situ hybridization.
Trzaskoma P, Ruszczycki B, Lee B, Pels KK, Krawczyk K, Bokota G, Szczepankiewicz AA, Aaron J, Walczak A, Śliwińska MA, Magalska A, Kadlof M, Wolny A, Parteka Z, Arabasz S, Kiss-Arabasz M, Plewczyński D, Ruan Y, Wilczyński GM. Trzaskoma P, et al. Among authors: ruan y. Nat Commun. 2020 May 1;11(1):2120. doi: 10.1038/s41467-020-15987-2. Nat Commun. 2020. PMID: 32358536 Free PMC article.
3,127 results