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BISCUIT: an efficient, standards-compliant tool suite for simultaneous genetic and epigenetic inference in bulk and single-cell studies Zhou, Wanding; Johnson, Benjamin K.; Morrison, Jacob; Beddows, Ian; Eapen, James; Katsman, Efrat; Semwal, Ayush; Habib, Walid Abi; Heo, Lyong; Laird, Peter W.; Berman, Benjamin P.; Triche Jr, Timothy J.; Shen, Hui 分享 收藏
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Muscle injury causes long-term changes in stem-cell DNA methylation Michaeli, Tal Falick; Sabag, Ofra; Fok, Rimma; Azria, Batia; Monin, Jonathan; Nevo, Yuval; Gielchinsky, Yuval; Berman, Benjamin P.; Cedar, Howard; Bergman, Yehudit 分享 收藏
DNA methylation and transcriptomic features are preserved throughout disease recurrence and chemoresistance in high grade serous ovarian cancers 在高级别浆液性卵巢癌中,DNA甲基化和转录组学特征在疾病复发和化疗耐药过程中得以保留 Gull, Nicole; Jones, Michelle R.; Peng, Pei-Chen; Coetzee, Simon G.; Silva, Tiago C.; Plummer, Jasmine T.; Reyes, Alberto Luiz P.; Davis, Brian D.; Chen, Stephanie S.; Lawrenson, Kate; Lester, Jenny; Walsh, Christine; Rimel, Bobbie J.; Li, Andrew J.; Cass, Ilana; Berg, Yonatan; Govindavari, John-Paul B.; Rutgers, Joanna K. L.; Berman, Benjamin P.; Karlan, Beth Y.; Gayther, Simon A. 分享 收藏
Detecting cell-of-origin and cancer-specific methylation features of cell-free DNA from Nanopore sequencing Katsman, Efrat; Orlanski, Shari; Martignano, Filippo; Fox-Fisher, Ilana; Shemer, Ruth; Dor, Yuval; Zick, Aviad; Eden, Amir; Petrini, Iacopo; Conticello, Silvestro G.; Berman, Benjamin P. 分享 收藏
Activation of bivalent factor DLX5 cooperates with master regulator TP63 to promote squamous cell carcinoma Huang, Yongsheng; Yang, Qian; Zheng, Yueyuan; Lin, Lehang; Xu, Xin; Xu, Xiu-E; Silva, Tiago C.; Hazawa, Masaharu; Peng, Li; Cao, Haotian; Ding, Yanbing; Lu, Daning; Berman, Benjamin P.; Xu, Li-Yan; Li, En-Min; Yin, Dong 分享 收藏
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A pan-cancer analysis of CpG Island gene regulation reveals extensive plasticity within Polycomb target genes (vol 12, 2485, 2021) Zheng, Yueyuan; Huang, Guowei; Silva, Tiago C.; Yang, Qian; Jiang, Yan-Yi; Koeffler, H. Phillip; Lin, De-Chen; Berman, Benjamin P. 分享 收藏
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Mechanistic and therapeutic distinctions between cardiosphere-derived cell and mesenchymal stem cell extracellular vesicle non-coding RNA Walravens, Ann-Sophie; Smolgovsky, Sasha; Li, Liang; Kelly, Lauren; Antes, Travis; Peck, Kiel; Quon, Tanner; Ibrahim, Ahmed; Marban, Eduardo; Berman, Benjamin; Marban, Linda; R-Borlado, Luis; de Couto, Geoffrey 分享 收藏
Whole-genome characterization of lung adenocarcinomas lacking the RTK/RAS/RAF pathway Carrot-Zhang, Jian; Yao, Xiaotong; Devarakonda, Siddhartha; Deshpande, Aditya; Damrauer, Jeffrey S.; Silva, Tiago Chedraoui; Wong, Christopher K.; Choi, Hyo Young; Felau, Ina; Robertson, A. Gordon; Castro, Mauro A. A.; Bao, Lisui; Rheinbay, Esther; Liu, Eric Minwei; Trieu, Tuan; Haan, David; Yau, Christina; Hinoue, Toshinori; Liu, Yuexin; Shapira, Ofer; Kumar, Kiran; Mungall, Karen L.; Zhang, Hailei; Lee, Jake June-Koo; Berger, Ashton; Gao, Galen F.; Zhitomirsky, Binyamin; Liang, Wen-Wei; Zhou, Meng; Moorthi, Sitapriya; Berger, Alice H.; Collisson, Eric A.; Zody, Michael C.; Ding, Li; Cherniack, Andrew D.; Getz, Gad; Elemento, Olivier; Benz, Christopher C.; Stuart, Josh; Zenklusen, J. C.; Beroukhim, Rameen; Chang, Jason C.; Campbell, Joshua D.; Hayes, D. Neil; Yang, Lixing; Laird, Peter W.; Weinstein, John N.; Kwiatkowski, David J.; Tsao, Ming S.; Travis, William D.; Khurana, Ekta; Berman, Benjamin P.; Hoadley, Katherine A.; Robine, Nicolas; Meyerson, Matthew; Govindan, Ramaswamy; Imielinski, Marcin 分享 收藏
Whole-genome characterization of lung adenocarcinomas lacking alterations in the RTK/RAS/RAF pathway (vol 34, 108707-1.e1, 2021) Carrot-Zhang, Jian; Yao, Xiaotong; Devarakonda, Siddhartha; Deshpande, Aditya; Damrauer, Jeffrey S.; Silva, Tiago Chedraoui; Wong, Christopher K.; Choi, Hyo Young; Felau, Ina; Robertson, A. Gordon; Castro, Mauro A. A.; Bao, Lisui; Rheinbay, Esther; Liu, Eric Minwei; Trieu, Tuan; Haan, David; Yau, Christina; Hinoue, Toshinori; Liu, Yuexin; Shapira, Ofer; Kumar, Kiran; Mungall, Karen L.; Zhang, Hailei; Lee, Jake June-Koo; Berger, Ashton; Gao, Galen F.; Zhitomirsky, Binyamin; Liang, Wen-Wei; Zhou, Meng; Moorthi, Sitapriya; Berger, Alice H.; Collisson, Eric A.; Zody, Michael C.; Ding, Li; Cherniack, Andrew D.; Getz, Gad; Elemento, Olivier; Benz, Christopher C.; Stuart, Josh; Zenklusen, J. C.; Beroukhim, Rameen; Chang, Jason C.; Campbell, Joshua D.; Hayes, D. Neil; Yang, Lixing; Laird, Peter W.; Weinstein, John N.; Kwiatkowski, David J.; Tsao, Ming S.; Travis, William D.; Khurana, Ekta; Berman, Benjamin P.; Hoadley, Katherine A.; Robine, Nicolas; Meyerson, Matthew; Govindan, Ramaswamy; Imielinski, Marcin 分享 收藏