Highly specific epigenome editing by CRISPR-Cas9 repressors for silencing of distal regulatory elements von Thakore, Pratiksha I, D'Ippolito, Anthony M, Song, Lingyun, Safi, Alexias, Shivakumar, Nishkala K, Kabadi, Ami M, Reddy, Timothy E, Crawford, Gregory E, Gersbach, Charles A

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Transcriptome-wide association study of schizophrenia and chromatin activity yields mechanistic disease insights von Gusev, Alexander, Mancuso, Nicholas, Won, Hyejung, Kousi, Maria, Finucane, Hilary K., Reshef, Yakir, Song, Lingyun, Safi, Alexias, McCarroll, Steven, Neale, Benjamin M., Ophoff, Roel A., O’Donovan, Michael C., Crawford, Gregory E., Geschwind, Daniel H., Katsanis, Nicholas, Sullivan, Patrick F., Pasaniuc, Bogdan, Price, Alkes L.

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Distinct Properties of Cell-Type-Specific and Shared Transcription Factor Binding Sites von Gertz, Jason, Savic, Daniel, Varley, Katherine E., Partridge, E. Christopher, Safi, Alexias, Jain, Preti, Cooper, Gregory M., Reddy, Timothy E., Crawford, Gregory E., Myers, Richard M.

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Enhancer selection dictates gene expression responses in remote organs during tissue regeneration von Sun, Fei, Ou, Jianhong, Shoffner, Adam R., Luan, Yu, Yang, Hongbo, Song, Lingyun, Safi, Alexias, Cao, Jingli, Yue, Feng, Crawford, Gregory E., Poss, Kenneth D.

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Regulation of chromatin accessibility and Zic binding at enhancers in the developing cerebellum von Frank, Christopher L, Liu, Fang, Wijayatunge, Ranjula, Song, Lingyun, Biegler, Matthew T, Yang, Marty G, Vockley, Christopher M, Safi, Alexias, Gersbach, Charles A, Crawford, Gregory E, West, Anne E

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Genome-wide specificity of DNA binding, gene regulation, and chromatin remodeling by TALE- and CRISPR/Cas9-based transcriptional activators von Polstein, Lauren R, Perez-Pinera, Pablo, Kocak, D Dewran, Vockley, Christopher M, Bledsoe, Peggy, Song, Lingyun, Safi, Alexias, Crawford, Gregory E, Reddy, Timothy E, Gersbach, Charles A

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Glucocorticoid receptor recruits to enhancers and drives activation by motif-directed binding von McDowell, Ian C, Barrera, Alejandro, D'Ippolito, Anthony M, Vockley, Christopher M, Hong, Linda K, Leichter, Sarah M, Bartelt, Luke C, Majoros, William H, Song, Lingyun, Safi, Alexias, Koçak, D Dewran, Gersbach, Charles A, Hartemink, Alexander J, Crawford, Gregory E, Engelhardt, Barbara E, Reddy, Timothy E

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Integrative QTL analysis of gene expression and chromatin accessibility identifies multi-tissue patterns of genetic regulation von Keele, Gregory R, Quach, Bryan C, Israel, Jennifer W, Chappell, Grace A, Lewis, Lauren, Safi, Alexias, Simon, Jeremy M, Cotney, Paul, Crawford, Gregory E, Valdar, William, Rusyn, Ivan, Furey, Terrence S

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Interactions of chromatin context, binding site sequence content, and sequence evolution in stress-induced p53 occupancy and transactivation von Su, Dan, Wang, Xuting, Campbell, Michelle R, Song, Lingyun, Safi, Alexias, Crawford, Gregory E, Bell, Douglas A

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Pre-established Chromatin Interactions Mediate the Genomic Response to Glucocorticoids von D'Ippolito, Anthony M., McDowell, Ian C., Barrera, Alejandro, Hong, Linda K., Leichter, Sarah M., Bartelt, Luke C., Vockley, Christopher M., Majoros, William H., Safi, Alexias, Song, Lingyun, Gersbach, Charles A., Crawford, Gregory E., Reddy, Timothy E.

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Sex dependent glial-specific changes in the chromatin accessibility landscape in late-onset Alzheimer's disease brains von Barrera, Julio, Song, Lingyun, Gamache, Julia E, Garrett, Melanie E, Safi, Alexias, Yun, Young, Premasinghe, Ivana, Sprague, Daniel, Chipman, Danielle, Li, Jeffrey, Fradin, Hélène, Soldano, Karen, Gordân, Raluca, Ashley-Koch, Allison E, Crawford, Gregory E, Chiba-Falek, Ornit

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Open Chromatin Profiling in Adipose Tissue Marks Genomic Regions with Functional Roles in Cardiometabolic Traits von Cannon, Maren E, Currin, Kevin W, Young, Kristin L, Perrin, Hannah J, Vadlamudi, Swarooparani, Safi, Alexias, Song, Lingyun, Wu, Ying, Wabitsch, Martin, Laakso, Markku, Crawford, Gregory E, Mohlke, Karen L

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Integrated chromatin and transcriptomic profiling of patient-derived colon cancer organoids identifies personalized drug targets to overcome oxaliplatin resistance von Tung, Kuei-Ling, Chen, Kai-Yuan, Negrete, Marcos, Chen, Tianyi, Safi, Alexias, Aljamal, Abed Alhalim, Song, Lingyun, Crawford, Gregory E., Ding, Shengli, Hsu, David S., Shen, Xiling

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CRISPR–Cas9 epigenome editing enables high-throughput screening for functional regulatory elements in the human genome von Klann, Tyler S, Black, Joshua B, Chellappan, Malathi, Safi, Alexias, Song, Lingyun, Hilton, Isaac B, Crawford, Gregory E, Reddy, Timothy E, Gersbach, Charles A

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Integrative functional genomic analysis of human brain development and neuropsychiatric risks von Li, Mingfeng, Santpere, Gabriel, Imamura Kawasawa, Yuka, Evgrafov, Oleg V, Gulden, Forrest O, Pochareddy, Sirisha, Sunkin, Susan M, Li, Zhen, Shin, Yurae, Zhu, Ying, Sousa, André M M, Werling, Donna M, Kitchen, Robert R, Kang, Hyo Jung, Pletikos, Mihovil, Choi, Jinmyung, Muchnik, Sydney, Xu, Xuming, Wang, Daifeng, Lorente-Galdos, Belen, Liu, Shuang, Giusti-Rodríguez, Paola, Won, Hyejung, de Leeuw, Christiaan A, Pardiñas, Antonio F, Hu, Ming, Jin, Fulai, Li, Yun, Owen, Michael J, O'Donovan, Michael C, Walters, James T R, Posthuma, Danielle, Reimers, Mark A, Levitt, Pat, Weinberger, Daniel R, Hyde, Thomas M, Kleinman, Joel E, Geschwind, Daniel H, Hawrylycz, Michael J, State, Matthew W, Sanders, Stephan J, Sullivan, Patrick F, Gerstein, Mark B, Lein, Ed S, Knowles, James A, Sestan, Nenad

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Role for the Pleckstrin Homology Domain-Containing Protein CKIP-1 in Phosphatidylinositol 3-Kinase-Regulated Muscle Differentiation von Safi, Alexias, Vandromme, Marie, Caussanel, Sabine, Valdacci, Laure, Baas, Dominique, Vidal, Marc, Brun, Gilbert, Schaeffer, Laurent, Goillot, Evelyne

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An integrated encyclopedia of DNA elements in the human genome von Kundaje, Anshul, Collins, Patrick J, Davis, Carrie A, Khatun, Jainab, Lajoie, Bryan R, Landt, Stephen G, Safi, Alexias, Altshuler, Robert C, Cheng, Chao, Greven, Melissa, Hoffman, Michael M, Lassmann, Timo, Thurman, Robert E, Wu, Weisheng, Xi, Hualin S, Zhuang, Jiali, Gunter, Chris, Dekker, Job, Elnitski, Laura, Giddings, Morgan C, Margulies, Elliott H, Stamatoyannopoulos, John A, Wold, Barbara, Kuiper, Heather C, Dobin, Alex, Tanzer, Andrea, Xue, Chenghai, Zaleski, Chris, Roder, Maik, Baer, Michael T, Bell, Kimberly, Gordon, Assaf, Howald, Cedric, Johnson, Rory, Kingswood, Colin, Li, Guoliang, Luo, Oscar J, Robyr, Daniel, Ruan, Xiaoan, Skancke, Jorgen, Suzuki, Ana Maria, Takahashi, Hazuki, Tilgner, Hagen, Wang, Huaien, Hayashizaki, Yoshihide, Hannon, Gregory J, Malladi, Venkat S, Dreszer, Timothy R, Showers, Kimberly A, London, Darin, Zhang, Zhancheng, Keefe, Damian, Zheng, Meizhen, Vielmetter, Jost, Jain, Preti, Pusey, Barbara, Meadows, Sarah K, Absher, Devin M, Pennachio, Len A, Abyzov, Alexej, Barrell, Daniel, Bignell, Alexandra, Diekhans, Mark, Ezkurdia, Iakes, Frankish, Adam, Hunt, Toby, Jungreis, Irwin, Loveland, Jane, Manthravadi, Deepa, Pei, Baikang, Snow, Catherine, Zhang, Zhengdong, Alexander, Roger P, Balasubramanian, Suganthi, Bettinger, Keith, Cayting, Philip, Habegger, Lukas, Lamarre-Vincent, Nathan, Lindahl-Allen, Marianne, Monahan, Hannah, Patacsil, Dorrelyn, Struhl, Kevin, Ma, Lijia, Inoue, Daigo, Kellner, Tanja, Kirchmaier, Stephan, Bates, Daniel L, Canfield, Theresa K, Boatman, Lisa, Neph, Shane J, Roach, Vaughn, Sanchez, Minerva E, Shafer, Anthony O, Vernot, Benjamin, Weaver, Molly A, Akey, Joshua M, Bender, Michael, Navas, Patrick, Hussami, Nadine, Schaub, Marc A

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Evolution of New Function through a Single Amino Acid Change in the Yeast Repressor Sum1p von Safi, Alexias, Wallace, Kelley A., Rusche, Laura N.

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Direct GR Binding Sites Potentiate Clusters of TF Binding across the Human Genome von Vockley, Christopher M., D’Ippolito, Anthony M., McDowell, Ian C., Majoros, William H., Safi, Alexias, Song, Lingyun, Crawford, Gregory E., Reddy, Timothy E.

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Targeted long-read sequencing identifies missing disease-causing variation von Miller, Danny E., Sulovari, Arvis, Wang, Tianyun, Loucks, Hailey, Hoekzema, Kendra, Munson, Katherine M., Lewis, Alexandra P., Fuerte, Edith P. Almanza, Paschal, Catherine R., Walsh, Tom, Thies, Jenny, Bennett, James T., Glass, Ian, Dipple, Katrina M., Patterson, Karynne, Bonkowski, Emily S., Nelson, Zoe, Squire, Audrey, Sikes, Megan, Beckman, Erika, Bennett, Robin L., Earl, Dawn, Lee, Winston, Allikmets, Rando, Perlman, Seth J., Chow, Penny, Hing, Anne V., Wenger, Tara L., Adam, Margaret P., Sun, Angela, Lam, Christina, Chang, Irene, Zou, Xue, Austin, Stephanie L., Huggins, Erin, Safi, Alexias, Iyengar, Apoorva K., Reddy, Timothy E., Majoros, William H., Allen, Andrew S., Crawford, Gregory E., Kishnani, Priya S., King, Mary-Claire, Cherry, Tim, Chong, Jessica X., Bamshad, Michael J., Nickerson, Deborah A., Mefford, Heather C., Doherty, Dan, Eichler, Evan E.

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