Intratumoral Heterogeneity of the Epigenome von Mazor, Tali, Pankov, Aleksandr, Song, Jun S., Costello, Joseph F.

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Saturation mutagenesis of twenty disease-associated regulatory elements at single base-pair resolution von Kircher, Martin, Xiong, Chenling, Martin, Beth, Schubach, Max, Inoue, Fumitaka, Bell, Robert J. A., Costello, Joseph F., Shendure, Jay, Ahituv, Nadav

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Targeted DNA demethylation and activation of endogenous genes using programmable TALE-TET1 fusion proteins von Maeder, Morgan L, Angstman, James F, Richardson, Marcy E, Linder, Samantha J, Cascio, Vincent M, Tsai, Shengdar Q, Ho, Quan H, Sander, Jeffry D, Reyon, Deepak, Bernstein, Bradley E, Costello, Joseph F, Wilkinson, Miles F, Joung, J Keith

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Single-cell RNA sequencing and spatial transcriptomics reveal cancer-associated fibroblasts in glioblastoma with protumoral effects von Jain, Saket, Rick, Jonathan W, Joshi, Rushikesh S, Beniwal, Angad, Spatz, Jordan, Gill, Sabraj, Chang, Alexander Chih-Chieh, Choudhary, Nikita, Nguyen, Alan T, Sudhir, Sweta, Chalif, Eric J, Chen, Jia-Shu, Chandra, Ankush, Haddad, Alexander F, Wadhwa, Harsh, Shah, Sumedh S, Choi, Serah, Hayes, Josie L, Wang, Lin, Yagnik, Garima, Costello, Joseph F, Diaz, Aaron, Heiland, Dieter Henrik, Aghi, Manish K

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Understanding TERT Promoter Mutations: A Common Path to Immortality von Bell, Robert J A, Rube, H Tomas, Xavier-Magalhães, Ana, Costa, Bruno M, Mancini, Andrew, Song, Jun S, Costello, Joseph F

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The transcription factor GABP selectively binds and activates the mutant TERT promoter in cancer von Bell, Robert J. A., Rube, H. Tomas, Kreig, Alex, Mancini, Andrew, Fouse, Shaun D., Nagarajan, Raman P., Choi, Serah, Hong, Chibo, He, Daniel, Pekmezci, Melike, Wiencke, John K., Wrensch, Margaret R., Chang, Susan M., Walsh, Kyle M., Myong, Sua, Song, Jun S., Costello, Joseph F.

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The clonal and mutational evolution spectrum of primary triple-negative breast cancers von Shah, Sohrab P., Roth, Andrew, Goya, Rodrigo, Oloumi, Arusha, Ha, Gavin, Zhao, Yongjun, Turashvili, Gulisa, Ding, Jiarui, Tse, Kane, Haffari, Gholamreza, Bashashati, Ali, Prentice, Leah M., Khattra, Jaswinder, Burleigh, Angela, Yap, Damian, Bernard, Virginie, McPherson, Andrew, Shumansky, Karey, Crisan, Anamaria, Giuliany, Ryan, Heravi-Moussavi, Alireza, Rosner, Jamie, Lai, Daniel, Birol, Inanc, Varhol, Richard, Tam, Angela, Dhalla, Noreen, Zeng, Thomas, Ma, Kevin, Chan, Simon K., Griffith, Malachi, Moradian, Annie, Cheng, S.-W. Grace, Morin, Gregg B., Watson, Peter, Gelmon, Karen, Chia, Stephen, Chin, Suet-Feung, Curtis, Christina, Rueda, Oscar M., Pharoah, Paul D., Damaraju, Sambasivarao, Mackey, John, Hoon, Kelly, Harkins, Timothy, Tadigotla, Vasisht, Sigaroudinia, Mahvash, Gascard, Philippe, Tlsty, Thea, Costello, Joseph F., Meyer, Irmtraud M., Eaves, Connie J., Wasserman, Wyeth W., Jones, Steven, Huntsman, David, Hirst, Martin, Caldas, Carlos, Marra, Marco A., Aparicio, Samuel

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miR-124 and miR-137 inhibit proliferation of glioblastoma multiforme cells and induce differentiation of brain tumor stem cells von Silber, Joachim, Lim, Daniel A, Petritsch, Claudia, Persson, Anders I, Maunakea, Alika K, Yu, Mamie, Vandenberg, Scott R, Ginzinger, David G, James, C David, Costello, Joseph F, Bergers, Gabriele, Weiss, William A, Alvarez-Buylla, Arturo, Hodgson, J Graeme

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Incomplete DNA methylation underlies a transcriptional memory of somatic cells in human iPS cells von Ohi, Yuki, Qin, Han, Hong, Chibo, Blouin, Laure, Polo, Jose M., Guo, Tingxia, Qi, Zhongxia, Downey, Sara L., Manos, Philip D., Rossi, Derrick J., Yu, Jingwei, Hebrok, Matthias, Hochedlinger, Konrad, Costello, Joseph F., Song, Jun S., Ramalho-Santos, Miguel

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DNA Methylation and Somatic Mutations Converge on the Cell Cycle and Define Similar Evolutionary Histories in Brain Tumors von Mazor, Tali, Pankov, Aleksandr, Johnson, Brett E., Hong, Chibo, Hamilton, Emily G., Bell, Robert J.A., Smirnov, Ivan V., Reis, Gerald F., Phillips, Joanna J., Barnes, Michael J., Idbaih, Ahmed, Alentorn, Agusti, Kloezeman, Jenneke J., Lamfers, Martine L.M., Bollen, Andrew W., Taylor, Barry S., Molinaro, Annette M., Olshen, Adam B., Chang, Susan M., Song, Jun S., Costello, Joseph F.

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Disruption of the β1L Isoform of GABP Reverses Glioblastoma Replicative Immortality in a TERT Promoter Mutation-Dependent Manner von Mancini, Andrew, Xavier-Magalhães, Ana, Woods, Wendy S., Nguyen, Kien-Thiet, Amen, Alexandra M., Hayes, Josie L., Fellmann, Christof, Gapinske, Michael, McKinney, Andrew M., Hong, Chibo, Jones, Lindsey E., Walsh, Kyle M., Bell, Robert J.A., Doudna, Jennifer A., Costa, Bruno M., Song, Jun S., Perez-Pinera, Pablo, Costello, Joseph F.

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The genomic landscape of juvenile myelomonocytic leukemia von Stieglitz, Elliot, Taylor-Weiner, Amaro N, Chang, Tiffany Y, Gelston, Laura C, Wang, Yong-Dong, Mazor, Tali, Esquivel, Emilio, Yu, Ariel, Seepo, Sara, Olsen, Scott R, Rosenberg, Mara, Archambeault, Sophie L, Abusin, Ghada, Beckman, Kyle, Brown, Patrick A, Briones, Michael, Carcamo, Benjamin, Cooper, Todd, Dahl, Gary V, Emanuel, Peter D, Fluchel, Mark N, Goyal, Rakesh K, Hayashi, Robert J, Hitzler, Johann, Hugge, Christopher, Liu, Y Lucy, Messinger, Yoav H, Mahoney, Donald H, Monteleone, Philip, Nemecek, Eneida R, Roehrs, Philip A, Schore, Reuven J, Stine, Kimo C, Takemoto, Clifford M, Toretsky, Jeffrey A, Costello, Joseph F, Olshen, Adam B, Stewart, Chip, Li, Yongjin, Ma, Jing, Gerbing, Robert B, Alonzo, Todd A, Getz, Gad, Gruber, Tanja A, Golub, Todd R, Stegmaier, Kimberly, Loh, Mignon L

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Genome-wide DNA methylation is predictive of outcome in juvenile myelomonocytic leukemia von Stieglitz, Elliot, Mazor, Tali, Olshen, Adam B., Geng, Huimin, Gelston, Laura C., Akutagawa, Jon, Lipka, Daniel B., Plass, Christoph, Flotho, Christian, Chehab, Farid F., Braun, Benjamin S., Costello, Joseph F., Loh, Mignon L.

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The Human Epigenome Browser at Washington University von Zhou, Xin, Maricque, Brett, Xie, Mingchao, Li, Daofeng, Sundaram, Vasavi, Martin, Eric A, Koebbe, Brian C, Nielsen, Cydney, Hirst, Martin, Farnham, Peggy, Kuhn, Robert M, Zhu, Jingchun, Smirnov, Ivan, Kent, W James, Haussler, David, Madden, Pamela A F, Costello, Joseph F, Wang, Ting

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Multiplatform genomic profiling and magnetic resonance imaging identify mechanisms underlying intratumor heterogeneity in meningioma von Magill, Stephen T., Vasudevan, Harish N., Seo, Kyounghee, Villanueva-Meyer, Javier E., Choudhury, Abrar, John Liu, S., Pekmezci, Melike, Findakly, Sarah, Hilz, Stephanie, Lastella, Sydney, Demaree, Benjamin, Braunstein, Steve E., Bush, Nancy Ann Oberheim, Aghi, Manish K., Theodosopoulos, Philip V., Sneed, Penny K., Abate, Adam R., Berger, Mitchel S., McDermott, Michael W., Lim, Daniel A., Ullian, Erik M., Costello, Joseph F., Raleigh, David R.

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A Hierarchy of Self-Renewing Tumor-Initiating Cell Types in Glioblastoma von Chen, Ruihuan, Nishimura, Merry C., Bumbaca, Stephanie M., Kharbanda, Samir, Forrest, William F., Kasman, Ian M., Greve, Joan M., Soriano, Robert H., Gilmour, Laurie L., Rivers, Celina Sanchez, Modrusan, Zora, Nacu, Serban, Guerrero, Steve, Edgar, Kyle A., Wallin, Jeffrey J., Lamszus, Katrin, Westphal, Manfred, Heim, Susanne, James, C. David, VandenBerg, Scott R., Costello, Joseph F., Moorefield, Scott, Cowdrey, Cynthia J., Prados, Michael, Phillips, Heidi S.

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Comparison of sequencing-based methods to profile DNA methylation and identification of monoallelic epigenetic modifications von Harris, R Alan, Wang, Ting, Coarfa, Cristian, Nagarajan, Raman P, Hong, Chibo, Downey, Sara L, Johnson, Brett E, Fouse, Shaun D, Delaney, Allen, Zhao, Yongjun, Olshen, Adam, Ballinger, Tracy, Zhou, Xin, Forsberg, Kevin J, Gu, Junchen, Echipare, Lorigail, O'Geen, Henriette, Lister, Ryan, Pelizzola, Mattia, Xi, Yuanxin, Epstein, Charles B, Bernstein, Bradley E, Hawkins, R David, Ren, Bing, Chung, Wen-Yu, Gu, Hongcang, Bock, Christoph, Gnirke, Andreas, Zhang, Michael Q, Haussler, David, Ecker, Joseph R, Li, Wei, Farnham, Peggy J, Waterland, Robert A, Meissner, Alexander, Marra, Marco A, Hirst, Martin, Milosavljevic, Aleksandar, Costello, Joseph F

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miRNA-independent function of long noncoding pri-miRNA loci von He, Daniel, Wu, David, Muller, Soren, Wang, Lin, Saha, Parna, Ahanger, Sajad Hamid, Liu, Siyuan John, Cui, Miao, Hong, Sung Jun, Jain, Miten, Olson, Hugh E., Akeson, Mark, Costello, Joseph F., Diaz, Aaron, Lim, Daniel A.

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Estimating absolute methylation levels at single-CpG resolution from methylation enrichment and restriction enzyme sequencing methods von Stevens, Michael, Cheng, Jeffrey B, Li, Daofeng, Xie, Mingchao, Hong, Chibo, Maire, Cécile L, Ligon, Keith L, Hirst, Martin, Marra, Marco A, Costello, Joseph F, Wang, Ting

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Epigenetic mechanisms in glioblastoma multiforme von Nagarajan, Raman P, Costello, Joseph F

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