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1.

Genetic Control of Chromatin States in Humans Involves Local and Distal Chromosomal Interactions.

Grubert, Fabian; Zaugg, Judith B; Kasowski, Maya; Ursu, Oana; Spacek, Damek V; Martin, Alicia R; Greenside, Peyton; Srivas, Rohith; Phanstiel, Doug H; Pekowska, Aleksandra; Heidari, Nastaran; Euskirchen, Ghia; Huber, Wolfgang; Pritchard, Jonathan K; Bustamante, Carlos D; Steinmetz, Lars M; Kundaje, Anshul; Snyder, Michael.

Cell ; 162(5): 1051-65, 2015 Aug 27.

Artículo en Inglés | MEDLINE | ID: mdl-26300125

2.

Extensive promoter-centered chromatin interactions provide a topological basis for transcription regulation.

Li, Guoliang; Ruan, Xiaoan; Auerbach, Raymond K; Sandhu, Kuljeet Singh; Zheng, Meizhen; Wang, Ping; Poh, Huay Mei; Goh, Yufen; Lim, Joanne; Zhang, Jingyao; Sim, Hui Shan; Peh, Su Qin; Mulawadi, Fabianus Hendriyan; Ong, Chin Thing; Orlov, Yuriy L; Hong, Shuzhen; Zhang, Zhizhuo; Landt, Steve; Raha, Debasish; Euskirchen, Ghia; Wei, Chia-Lin; Ge, Weihong; Wang, Huaien; Davis, Carrie; Fisher-Aylor, Katherine I; Mortazavi, Ali; Gerstein, Mark; Gingeras, Thomas; Wold, Barbara; Sun, Yi; Fullwood, Melissa J; Cheung, Edwin; Liu, Edison; Sung, Wing-Kin; Snyder, Michael; Ruan, Yijun.

Cell ; 148(1-2): 84-98, 2012 Jan 20.

Artículo en Inglés | MEDLINE | ID: mdl-22265404

3.

Personal omics profiling reveals dynamic molecular and medical phenotypes.

Chen, Rui; Mias, George I; Li-Pook-Than, Jennifer; Jiang, Lihua; Lam, Hugo Y K; Chen, Rong; Miriami, Elana; Karczewski, Konrad J; Hariharan, Manoj; Dewey, Frederick E; Cheng, Yong; Clark, Michael J; Im, Hogune; Habegger, Lukas; Balasubramanian, Suganthi; O'Huallachain, Maeve; Dudley, Joel T; Hillenmeyer, Sara; Haraksingh, Rajini; Sharon, Donald; Euskirchen, Ghia; Lacroute, Phil; Bettinger, Keith; Boyle, Alan P; Kasowski, Maya; Grubert, Fabian; Seki, Scott; Garcia, Marco; Whirl-Carrillo, Michelle; Gallardo, Mercedes; Blasco, Maria A; Greenberg, Peter L; Snyder, Phyllis; Klein, Teri E; Altman, Russ B; Butte, Atul J; Ashley, Euan A; Gerstein, Mark; Nadeau, Kari C; Tang, Hua; Snyder, Michael.

Cell ; 148(6): 1293-307, 2012 Mar 16.

Artículo en Inglés | MEDLINE | ID: mdl-22424236

4.

Principles of regulatory information conservation between mouse and human.

Cheng, Yong; Ma, Zhihai; Kim, Bong-Hyun; Wu, Weisheng; Cayting, Philip; Boyle, Alan P; Sundaram, Vasavi; Xing, Xiaoyun; Dogan, Nergiz; Li, Jingjing; Euskirchen, Ghia; Lin, Shin; Lin, Yiing; Visel, Axel; Kawli, Trupti; Yang, Xinqiong; Patacsil, Dorrelyn; Keller, Cheryl A; Giardine, Belinda; Kundaje, Anshul; Wang, Ting; Pennacchio, Len A; Weng, Zhiping; Hardison, Ross C; Snyder, Michael P.

Nature ; 515(7527): 371-375, 2014 Nov 20.

Artículo en Inglés | MEDLINE | ID: mdl-25409826

5.

Bisulfite-independent analysis of CpG island methylation enables genome-scale stratification of single cells.

Han, Lin; Wu, Hua-Jun; Zhu, Haiying; Kim, Kun-Yong; Marjani, Sadie L; Riester, Markus; Euskirchen, Ghia; Zi, Xiaoyuan; Yang, Jennifer; Han, Jasper; Snyder, Michael; Park, In-Hyun; Irizarry, Rafael; Weissman, Sherman M; Michor, Franziska; Fan, Rong; Pan, Xinghua.

Nucleic Acids Res ; 45(10): e77, 2017 Jun 02.

Artículo en Inglés | MEDLINE | ID: mdl-28126923

6.

Single cell transcriptomics reveals unanticipated features of early hematopoietic precursors.

Yang, Jennifer; Tanaka, Yoshiaki; Seay, Montrell; Li, Zhen; Jin, Jiaqi; Garmire, Lana Xia; Zhu, Xun; Taylor, Ashley; Li, Weidong; Euskirchen, Ghia; Halene, Stephanie; Kluger, Yuval; Snyder, Michael P; Park, In-Hyun; Pan, Xinghua; Weissman, Sherman Morton.

Nucleic Acids Res ; 45(3): 1281-1296, 2017 02 17.

Artículo en Inglés | MEDLINE | ID: mdl-28003475

7.

Architecture of the human regulatory network derived from ENCODE data.

Gerstein, Mark B; Kundaje, Anshul; Hariharan, Manoj; Landt, Stephen G; Yan, Koon-Kiu; Cheng, Chao; Mu, Xinmeng Jasmine; Khurana, Ekta; Rozowsky, Joel; Alexander, Roger; Min, Renqiang; Alves, Pedro; Abyzov, Alexej; Addleman, Nick; Bhardwaj, Nitin; Boyle, Alan P; Cayting, Philip; Charos, Alexandra; Chen, David Z; Cheng, Yong; Clarke, Declan; Eastman, Catharine; Euskirchen, Ghia; Frietze, Seth; Fu, Yao; Gertz, Jason; Grubert, Fabian; Harmanci, Arif; Jain, Preti; Kasowski, Maya; Lacroute, Phil; Leng, Jing Jane; Lian, Jin; Monahan, Hannah; O'Geen, Henriette; Ouyang, Zhengqing; Partridge, E Christopher; Patacsil, Dorrelyn; Pauli, Florencia; Raha, Debasish; Ramirez, Lucia; Reddy, Timothy E; Reed, Brian; Shi, Minyi; Slifer, Teri; Wang, Jing; Wu, Linfeng; Yang, Xinqiong; Yip, Kevin Y; Zilberman-Schapira, Gili.

Nature ; 489(7414): 91-100, 2012 Sep 06.

Artículo en Inglés | MEDLINE | ID: mdl-22955619

8.

Functional genomic screen of human stem cell differentiation reveals pathways involved in neurodevelopment and neurodegeneration.

Zhang, Ying; Schulz, Vincent P; Reed, Brian D; Wang, Zheng; Pan, Xinghua; Mariani, Jessica; Euskirchen, Ghia; Snyder, Michael P; Vaccarino, Flora M; Ivanova, Natalia; Weissman, Sherman M; Szekely, Anna M.

Proc Natl Acad Sci U S A ; 110(30): 12361-6, 2013 Jul 23.

Artículo en Inglés | MEDLINE | ID: mdl-23836664

9.

Two methods for full-length RNA sequencing for low quantities of cells and single cells.

Pan, Xinghua; Durrett, Russell E; Zhu, Haiying; Tanaka, Yoshiaki; Li, Yumei; Zi, Xiaoyuan; Marjani, Sadie L; Euskirchen, Ghia; Ma, Chao; Lamotte, Robert H; Park, In-Hyun; Snyder, Michael P; Mason, Christopher E; Weissman, Sherman M.

Proc Natl Acad Sci U S A ; 110(2): 594-9, 2013 Jan 08.

Artículo en Inglés | MEDLINE | ID: mdl-23267071

10.

ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia.

Landt, Stephen G; Marinov, Georgi K; Kundaje, Anshul; Kheradpour, Pouya; Pauli, Florencia; Batzoglou, Serafim; Bernstein, Bradley E; Bickel, Peter; Brown, James B; Cayting, Philip; Chen, Yiwen; DeSalvo, Gilberto; Epstein, Charles; Fisher-Aylor, Katherine I; Euskirchen, Ghia; Gerstein, Mark; Gertz, Jason; Hartemink, Alexander J; Hoffman, Michael M; Iyer, Vishwanath R; Jung, Youngsook L; Karmakar, Subhradip; Kellis, Manolis; Kharchenko, Peter V; Li, Qunhua; Liu, Tao; Liu, X Shirley; Ma, Lijia; Milosavljevic, Aleksandar; Myers, Richard M; Park, Peter J; Pazin, Michael J; Perry, Marc D; Raha, Debasish; Reddy, Timothy E; Rozowsky, Joel; Shoresh, Noam; Sidow, Arend; Slattery, Matthew; Stamatoyannopoulos, John A; Tolstorukov, Michael Y; White, Kevin P; Xi, Simon; Farnham, Peggy J; Lieb, Jason D; Wold, Barbara J; Snyder, Michael.

Genome Res ; 22(9): 1813-31, 2012 Sep.

Artículo en Inglés | MEDLINE | ID: mdl-22955991

11.

Integrated systems analysis reveals a molecular network underlying autism spectrum disorders.

Li, Jingjing; Shi, Minyi; Ma, Zhihai; Zhao, Shuchun; Euskirchen, Ghia; Ziskin, Jennifer; Urban, Alexander; Hallmayer, Joachim; Snyder, Michael.

Mol Syst Biol ; 10: 774, 2014 Dec 30.

Artículo en Inglés | MEDLINE | ID: mdl-25549968

12.

Diverse roles and interactions of the SWI/SNF chromatin remodeling complex revealed using global approaches.

Euskirchen, Ghia M; Auerbach, Raymond K; Davidov, Eugene; Gianoulis, Tara A; Zhong, Guoneng; Rozowsky, Joel; Bhardwaj, Nitin; Gerstein, Mark B; Snyder, Michael.

PLoS Genet ; 7(3): e1002008, 2011 Mar.

Artículo en Inglés | MEDLINE | ID: mdl-21408204

13.

Whole-exome sequencing identifies tetratricopeptide repeat domain 7A (TTC7A) mutations for combined immunodeficiency with intestinal atresias.

Chen, Rui; Giliani, Silvia; Lanzi, Gaetana; Mias, George I; Lonardi, Silvia; Dobbs, Kerry; Manis, John; Im, Hogune; Gallagher, Jennifer E; Phanstiel, Douglas H; Euskirchen, Ghia; Lacroute, Philippe; Bettinger, Keith; Moratto, Daniele; Weinacht, Katja; Montin, Davide; Gallo, Eleonora; Mangili, Giovanna; Porta, Fulvio; Notarangelo, Lucia D; Pedretti, Stefania; Al-Herz, Waleed; Alfahdli, Wasmi; Comeau, Anne Marie; Traister, Russell S; Pai, Sung-Yun; Carella, Graziella; Facchetti, Fabio; Nadeau, Kari C; Snyder, Michael; Notarangelo, Luigi D.

J Allergy Clin Immunol ; 132(3): 656-664.e17, 2013 Sep.

Artículo en Inglés | MEDLINE | ID: mdl-23830146

14.

SWI/SNF chromatin-remodeling factors: multiscale analyses and diverse functions.

Euskirchen, Ghia; Auerbach, Raymond K; Snyder, Michael.

J Biol Chem ; 287(37): 30897-905, 2012 Sep 07.

Artículo en Inglés | MEDLINE | ID: mdl-22952240

15.

Comprehensive annotation of the transcriptome of the human fungal pathogen Candida albicans using RNA-seq.

Bruno, Vincent M; Wang, Zhong; Marjani, Sadie L; Euskirchen, Ghia M; Martin, Jeffrey; Sherlock, Gavin; Snyder, Michael.

Genome Res ; 20(10): 1451-8, 2010 Oct.

Artículo en Inglés | MEDLINE | ID: mdl-20810668

16.

X chromosome-wide analyses of genomic DNA methylation states and gene expression in male and female neutrophils.

Yasukochi, Yukio; Maruyama, Osamu; Mahajan, Milind C; Padden, Carolyn; Euskirchen, Ghia M; Schulz, Vincent; Hirakawa, Hideki; Kuhara, Satoru; Pan, Xing-Hua; Newburger, Peter E; Snyder, Michael; Weissman, Sherman M.

Proc Natl Acad Sci U S A ; 107(8): 3704-9, 2010 Feb 23.

Artículo en Inglés | MEDLINE | ID: mdl-20133578

17.

Molecular mechanisms of ethanol-induced pathogenesis revealed by RNA-sequencing.

Camarena, Laura; Bruno, Vincent; Euskirchen, Ghia; Poggio, Sebastian; Snyder, Michael.

PLoS Pathog ; 6(4): e1000834, 2010 Apr 01.

Artículo en Inglés | MEDLINE | ID: mdl-20368969

18.

Mapping accessible chromatin regions using Sono-Seq.

Auerbach, Raymond K; Euskirchen, Ghia; Rozowsky, Joel; Lamarre-Vincent, Nathan; Moqtaderi, Zarmik; Lefrançois, Philippe; Struhl, Kevin; Gerstein, Mark; Snyder, Michael.

Proc Natl Acad Sci U S A ; 106(35): 14926-31, 2009 Sep 01.

Artículo en Inglés | MEDLINE | ID: mdl-19706456

19.

Efficient yeast ChIP-Seq using multiplex short-read DNA sequencing.

Lefrançois, Philippe; Euskirchen, Ghia M; Auerbach, Raymond K; Rozowsky, Joel; Gibson, Theodore; Yellman, Christopher M; Gerstein, Mark; Snyder, Michael.

BMC Genomics ; 10: 37, 2009 Jan 21.

Artículo en Inglés | MEDLINE | ID: mdl-19159457

20.

A plethora of sites.

Euskirchen, Ghia; Snyder, Michael.

Nat Genet ; 36(4): 325-6, 2004 Apr.

Artículo en Inglés | MEDLINE | ID: mdl-15054485

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