Protocol for using single-cell sequencing to study the heterogeneity of NF1 nerve sheath tumors from clinical biospecimens by Xiyuan Zhang, Vishaka Gopalan, Neeraja Syed, Sridhar Hannenhalli, Jack F. Shern

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Loss of CASZ1 tumor suppressor linked to oncogenic subversion of neuroblastoma core regulatory circuitry by Zhihui Liu, Xiyuan Zhang, Man Xu, Haiyan Lei, Jack F. Shern, Carol J. Thiele

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Multiple Nf1 Schwann cell populations reprogram the plexiform neurofibroma tumor microenvironment by Leah J. Kershner, Kwangmin Choi, Jianqiang Wu, Xiyuan Zhang, Melissa Perrino, Nathan Salomonis, Jack F. Shern, Nancy Ratner

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Targeting wild-type and mutationally activated FGFR4 in rhabdomyosarcoma with the inhibitor ponatinib (AP24534). by Samuel Q Li, Adam T Cheuk, Jack F Shern, Young K Song, Laura Hurd, Hongling Liao, Jun S Wei, Javed Khan

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MYCN drives oncogenesis by cooperating with the histone methyltransferase G9a and the WDR5 adaptor to orchestrate global gene transcription. by Zhihui Liu, Xiyuan Zhang, Man Xu, Jason J Hong, Amanda Ciardiello, Haiyan Lei, Jack F Shern, Carol J Thiele

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Preclinical Development of Bivalent Chimeric Antigen Receptors Targeting Both CD19 and CD22 by Haiying Qin, Sneha Ramakrishna, Sang Nguyen, Thomas J. Fountaine, Anusha Ponduri, Maryalice Stetler-Stevenson, Constance M. Yuan, Waleed Haso, Jack F. Shern, Nirali N. Shah, Terry J. Fry

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Integrative Bayesian Analysis Identifies Rhabdomyosarcoma Disease Genes by Lin Xu, Yanbin Zheng, Jing Liu, Dinesh Rakheja, Sydney Singleterry, Theodore W. Laetsch, Jack F. Shern, Javed Khan, Timothy J. Triche, Douglas S. Hawkins, James F. Amatruda, Stephen X. Skapek

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Clonality and evolutionary history of rhabdomyosarcoma. by Li Chen, Jack F Shern, Jun S Wei, Marielle E Yohe, Young K Song, Laura Hurd, Hongling Liao, Daniel Catchpoole, Stephen X Skapek, Frederic G Barr, Douglas S Hawkins, Javed Khan

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CASZ1 induces skeletal muscle and rhabdomyosarcoma differentiation through a feed-forward loop with MYOD and MYOG by Zhihui Liu, Xiyuan Zhang, Haiyan Lei, Norris Lam, Sakereh Carter, Oliver Yockey, Max Xu, Arnulfo Mendoza, Edjay R. Hernandez, Jun S. Wei, Javed Khan, Marielle E. Yohe, Jack F. Shern, Carol J. Thiele

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Sequential loss of tumor surface antigens following chimeric antigen receptor T-cell therapies in diffuse large B-cell lymphoma by Haneen Shalabi, Ira L. Kraft, Hao-Wei Wang, Constance M. Yuan, Bonnie Yates, Cindy Delbrook, Julie D. Zimbelman, Roger Giller, Maryalice Stetler-Stevenson, Elaine S. Jaffe, Daniel W. Lee, Jack F. Shern, Terry J. Fry, Nirali N. Shah

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Chemical genomics reveals histone deacetylases are required for core regulatory transcription by Berkley E. Gryder, Lei Wu, Girma M. Woldemichael, Silvia Pomella, Taylor R. Quinn, Paul M. C. Park, Abigail Cleveland, Benjamin Z. Stanton, Young Song, Rossella Rota, Olaf Wiest, Marielle E. Yohe, Jack F. Shern, Jun Qi, Javed Khan

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Diagnostic approach to the evaluation of myeloid malignancies following CAR T-cell therapy in B-cell acute lymphoblastic leukemia by Aimee C Talleur, Brandon M Triplett, Haneen Shalabi, Bonnie Yates, Nirali N Shah, George Mo, Hao-Wei Wang, Michael G Douvas, Katherine R Calvo, Jack F Shern, Sridhar Chaganti, Katharine Patrick, Young Song, Terry J Fry, Xiaolin Wu, Javed Khan, Rebecca A Gardner

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Defining the Extracellular Matrix of Rhabdomyosarcoma by Xiaolei Lian, J. Steffan Bond, Narendra Bharathy, Sergei P. Boudko, Elena Pokidysheva, Jack F. Shern, Melvin Lathara, Takako Sasaki, Teagan Settelmeyer, Megan M. Cleary, Ayeza Bajwa, Ganapati Srinivasa, Christopher P. Hartley, Hans Peter Bächinger, Atiya Mansoor, Sakir H. Gultekin, Noah E. Berlow, Charles Keller

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CD19 CAR immune pressure induces B-precursor acute lymphoblastic leukaemia lineage switch exposing inherent leukaemic plasticity by Elad Jacoby, Sang M. Nguyen, Thomas J. Fountaine, Kathryn Welp, Berkley Gryder, Haiying Qin, Yinmeng Yang, Christopher D. Chien, Alix E. Seif, Haiyan Lei, Young K. Song, Javed Khan, Daniel W. Lee, Crystal L. Mackall, Rebecca A. Gardner, Michael C. Jensen, Jack F. Shern, Terry J. Fry

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Hepatocyte Growth Factor-mediated satellite cells niche perturbation promotes development of distinct sarcoma subtypes by Deborah Morena, Nicola Maestro, Francesca Bersani, Paolo Emanuele Forni, Marcello Francesco Lingua, Valentina Foglizzo, Petar Šćepanović, Silvia Miretti, Alessandro Morotti, Jack F Shern, Javed Khan, Ugo Ala, Paolo Provero, Valentina Sala, Tiziana Crepaldi, Patrizia Gasparini, Michela Casanova, Andrea Ferrari, Gabriella Sozzi, Roberto Chiarle, Carola Ponzetto, Riccardo Taulli

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Cell-free DNA ultra-low-pass whole genome sequencing to distinguish malignant peripheral nerve sheath tumor (MPNST) from its benign precursor lesion: A cross-sectional study. by Jeffrey J Szymanski, R Taylor Sundby, Paul A Jones, Divya Srihari, Noah Earland, Peter K Harris, Wenjia Feng, Faridi Qaium, Haiyan Lei, David Roberts, Michele Landeau, Jamie Bell, Yi Huang, Leah Hoffman, Melissa Spencer, Matthew B Spraker, Li Ding, Brigitte C Widemann, Jack F Shern, Angela C Hirbe, Aadel A Chaudhuri

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Urine cell-free DNA multi-omics to detect MRD and predict survival in bladder cancer patients by Pradeep S. Chauhan, Alexander Shiang, Irfan Alahi, R. Taylor Sundby, Wenjia Feng, Bilge Gungoren, Cayce Nawaf, Kevin Chen, Ramandeep K. Babbra, Peter K. Harris, Faridi Qaium, Casey Hatscher, Anna Antiporda, Lindsey Brunt, Lindsey R. Mayer, Jack F. Shern, Brian C. Baumann, Eric H. Kim, Melissa A. Reimers, Zachary L. Smith, Aadel A. Chaudhuri

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Chromosome 8 gain is associated with high-grade transformation in MPNST by Carina Dehner, Chang In Moon, Xiyuan Zhang, Zhaohe Zhou, Chris Miller, Hua Xu, Xiaodan Wan, Kuangying Yang, Jay Mashl, Sara J.C. Gosline, Yuxi Wang, Xiaochun Zhang, Abigail Godec, Paul A. Jones, Sonika Dahiya, Himanshi Bhatia, Tina Primeau, Shunqiang Li, Kai Pollard, Fausto J. Rodriguez, Li Ding, Christine A. Pratilas, Jack F. Shern, Angela C. Hirbe

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The genomic landscape of the Ewing Sarcoma family of tumors reveals recurrent STAG2 mutation. by Andrew S Brohl, David A Solomon, Wendy Chang, Jianjun Wang, Young Song, Sivasish Sindiri, Rajesh Patidar, Laura Hurd, Li Chen, Jack F Shern, Hongling Liao, Xinyu Wen, Julia Gerard, Jung-Sik Kim, Jose Antonio Lopez Guerrero, Isidro Machado, Daniel H Wai, Piero Picci, Timothy Triche, Andrew E Horvai, Markku Miettinen, Jun S Wei, Daniel Catchpool, Antonio Llombart-Bosch, Todd Waldman, Javed Khan

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KDM3B inhibitors disrupt the oncogenic activity of PAX3-FOXO1 in fusion-positive rhabdomyosarcoma by Yong Yean Kim, Berkley E. Gryder, Ranuka Sinniah, Megan L. Peach, Jack F. Shern, Abdalla Abdelmaksoud, Silvia Pomella, Girma M. Woldemichael, Benjamin Z. Stanton, David Milewski, Joseph J. Barchi, John S. Schneekloth, Raj Chari, Joshua T. Kowalczyk, Shilpa R. Shenoy, Jason R. Evans, Young K. Song, Chaoyu Wang, Xinyu Wen, Hsien-Chao Chou, Vineela Gangalapudi, Dominic Esposito, Jane Jones, Lauren Procter, Maura O’Neill, Lisa M. Jenkins, Nadya I. Tarasova, Jun S. Wei, James B. McMahon, Barry R. O’Keefe, Robert G. Hawley, Javed Khan

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