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Items: 1 to 20 of 90

1.

A major chromatin regulator determines resistance of tumor cells to T cell-mediated killing.

Pan D, Kobayashi A, Jiang P, Ferrari de Andrade L, Tay RE, Luoma A, Tsoucas D, Qiu X, Lim K, Rao P, Long HW, Yuan GC, Doench J, Brown M, Liu S, Wucherpfennig KW.

Science. 2018 Jan 4. pii: eaao1710. doi: 10.1126/science.aao1710. [Epub ahead of print]

PMID:
29301958
2.

Differential connectivity of gene regulatory networks distinguishes corticosteroid response in asthma.

Qiu W, Guo F, Glass K, Yuan GC, Quackenbush J, Zhou X, Tantisira KG.

J Allergy Clin Immunol. 2017 Jul 20. pii: S0091-6749(17)31109-0. doi: 10.1016/j.jaci.2017.05.052. [Epub ahead of print]

PMID:
28736268
3.

Dynamic Reorganization of Chromatin Accessibility Signatures during Dedifferentiation of Secretory Precursors into Lgr5+ Intestinal Stem Cells.

Jadhav U, Saxena M, O'Neill NK, Saadatpour A, Yuan GC, Herbert Z, Murata K, Shivdasani RA.

Cell Stem Cell. 2017 Jul 6;21(1):65-77.e5. doi: 10.1016/j.stem.2017.05.001. Epub 2017 Jun 22.

PMID:
28648363
4.

A molecular roadmap for induced multi-lineage trans-differentiation of fibroblasts by chemical combinations.

Han X, Yu H, Huang D, Xu Y, Saadatpour A, Li X, Wang L, Yu J, Pinello L, Lai S, Jiang M, Tian X, Zhang F, Cen Y, Fujiwara Y, Zhu W, Zhou B, Zhou T, Ouyang H, Wang J, Yuan GC, Duan S, Orkin SH, Guo G.

Cell Res. 2017 Jun;27(6):843. doi: 10.1038/cr.2017.78. No abstract available.

5.

A molecular roadmap for induced multi-lineage trans-differentiation of fibroblasts by chemical combinations.

Han X, Yu H, Huang D, Xu Y, Saadatpour A, Li X, Wang L, Yu J, Pinello L, Lai S, Jiang M, Tian X, Zhang F, Cen Y, Fujiwara Y, Zhu W, Zhou B, Zhou T, Ouyang H, Wang J, Yuan GC, Duan S, Orkin SH, Guo G.

Cell Res. 2017 Jun;27(6):842. doi: 10.1038/cr.2017.77. No abstract available.

6.

Challenges and emerging directions in single-cell analysis.

Yuan GC, Cai L, Elowitz M, Enver T, Fan G, Guo G, Irizarry R, Kharchenko P, Kim J, Orkin S, Quackenbush J, Saadatpour A, Schroeder T, Shivdasani R, Tirosh I.

Genome Biol. 2017 May 8;18(1):84. doi: 10.1186/s13059-017-1218-y. Review.

7.

Gene regulatory pattern analysis reveals essential role of core transcriptional factors' activation in triple-negative breast cancer.

Min L, Zhang C, Qu L, Huang J, Jiang L, Liu J, Pinello L, Yuan GC, Shou C.

Oncotarget. 2017 Mar 28;8(13):21938-21953. doi: 10.18632/oncotarget.15749.

8.

Synergistic Immunostimulatory Effects and Therapeutic Benefit of Combined Histone Deacetylase and Bromodomain Inhibition in Non-Small Cell Lung Cancer.

Adeegbe DO, Liu Y, Lizotte PH, Kamihara Y, Aref AR, Almonte C, Dries R, Li Y, Liu S, Wang X, Warner-Hatten T, Castrillon J, Yuan GC, Poudel-Neupane N, Zhang H, Guerriero JL, Han S, Awad MM, Barbie DA, Ritz J, Jones SS, Hammerman PS, Bradner J, Quayle SN, Wong KK.

Cancer Discov. 2017 Aug;7(8):852-867. doi: 10.1158/2159-8290.CD-16-1020. Epub 2017 Apr 13.

PMID:
28408401
9.

Multi-scale chromatin state annotation using a hierarchical hidden Markov model.

Marco E, Meuleman W, Huang J, Glass K, Pinello L, Wang J, Kellis M, Yuan GC.

Nat Commun. 2017 Apr 7;8:15011. doi: 10.1038/ncomms15011.

10.

Analysis of Cardiac Myocyte Maturation Using CASAAV, a Platform for Rapid Dissection of Cardiac Myocyte Gene Function In Vivo.

Guo Y, VanDusen NJ, Zhang L, Gu W, Sethi I, Guatimosim S, Ma Q, Jardin BD, Ai Y, Zhang D, Chen B, Guo A, Yuan GC, Song LS, Pu WT.

Circ Res. 2017 Jun 9;120(12):1874-1888. doi: 10.1161/CIRCRESAHA.116.310283. Epub 2017 Mar 29. Review.

PMID:
28356340
11.

Variant-aware saturating mutagenesis using multiple Cas9 nucleases identifies regulatory elements at trait-associated loci.

Canver MC, Lessard S, Pinello L, Wu Y, Ilboudo Y, Stern EN, Needleman AJ, Galactéros F, Brugnara C, Kutlar A, McKenzie C, Reid M, Chen DD, Das PP, A Cole M, Zeng J, Kurita R, Nakamura Y, Yuan GC, Lettre G, Bauer DE, Orkin SH.

Nat Genet. 2017 Apr;49(4):625-634. doi: 10.1038/ng.3793. Epub 2017 Feb 20.

12.
13.

A molecular roadmap for induced multi-lineage trans-differentiation of fibroblasts by chemical combinations.

Han X, Yu H, Huang D, Xu Y, Saadatpour A, Li X, Wang L, Yu J, Pinello L, Lai S, Jiang M, Tian X, Zhang F, Cen Y, Fujiwara Y, Zhu W, Zhou B, Zhou T, Ouyang H, Wang J, Yuan GC, Duan S, Orkin SH, Guo G.

Cell Res. 2017 Mar;27(3):386-401. doi: 10.1038/cr.2017.17. Epub 2017 Jan 27.

PMID:
28128194
14.

Recent progress in single-cell cancer genomics.

Tsoucas D, Yuan GC.

Curr Opin Genet Dev. 2017 Feb;42:22-32. doi: 10.1016/j.gde.2017.01.002. Epub 2017 Jan 23. Review.

15.

The histone demethylase UTX regulates the lineage-specific epigenetic program of invariant natural killer T cells.

Beyaz S, Kim JH, Pinello L, Xifaras ME, Hu Y, Huang J, Kerenyi MA, Das PP, Barnitz RA, Herault A, Dogum R, Haining WN, Yilmaz ÖH, Passegue E, Yuan GC, Orkin SH, Winau F.

Nat Immunol. 2017 Feb;18(2):184-195. doi: 10.1038/ni.3644. Epub 2016 Dec 19.

16.

Multiparametric profiling of non-small-cell lung cancers reveals distinct immunophenotypes.

Lizotte PH, Ivanova EV, Awad MM, Jones RE, Keogh L, Liu H, Dries R, Almonte C, Herter-Sprie GS, Santos A, Feeney NB, Paweletz CP, Kulkarni MM, Bass AJ, Rustgi AK, Yuan GC, Kufe DW, Jänne PA, Hammerman PS, Sholl LM, Hodi FS, Richards WG, Bueno R, English JM, Bittinger MA, Wong KK.

JCI Insight. 2016 Sep 8;1(14):e89014.

17.

Identification of Transcribed Enhancers by Genome-Wide Chromatin Immunoprecipitation Sequencing.

Blinka S, Reimer MH Jr, Pulakanti K, Pinello L, Yuan GC, Rao S.

Methods Mol Biol. 2017;1468:91-109. doi: 10.1007/978-1-4939-4035-6_8.

18.

Single-Cell Transcript Profiles Reveal Multilineage Priming in Early Progenitors Derived from Lgr5(+) Intestinal Stem Cells.

Kim TH, Saadatpour A, Guo G, Saxena M, Cavazza A, Desai N, Jadhav U, Jiang L, Rivera MN, Orkin SH, Yuan GC, Shivdasani RA.

Cell Rep. 2016 Aug 23;16(8):2053-2060. doi: 10.1016/j.celrep.2016.07.056. Epub 2016 Aug 11.

19.

Analyzing CRISPR genome-editing experiments with CRISPResso.

Pinello L, Canver MC, Hoban MD, Orkin SH, Kohn DB, Bauer DE, Yuan GC.

Nat Biotechnol. 2016 Jul 12;34(7):695-7. doi: 10.1038/nbt.3583. No abstract available.

20.

GiniClust: detecting rare cell types from single-cell gene expression data with Gini index.

Jiang L, Chen H, Pinello L, Yuan GC.

Genome Biol. 2016 Jul 1;17(1):144. doi: 10.1186/s13059-016-1010-4.

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