@article{
 title = {Comprehensive Molecular Characterization of Muscle-Invasive Bladder Cancer},
 type = {article},
 year = {2017},
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 keywords = {APOBEC mutation,DNA methylation,basal mRNA subtype,lncRNA transcriptome,luminal mRNA subtype,microRNA,muscle-invasive bladder cancer,neoantigen,neuronal subtype,regulon},
 pages = {540-556.e25},
 volume = {171},
 websites = {http://linkinghub.elsevier.com/retrieve/pii/S0092867417310565},
 month = {10},
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 abstract = {We report a comprehensive analysis of 412 muscle-invasive bladder cancers characterized by multiple TCGA analytical platforms. Fifty-eight genes were significantly mutated, and the overall mutational load was associated with APOBEC-signature mutagenesis. Clustering by mutation signature identified a high-mutation subset with 75% 5-year survival. mRNA expression clustering refined prior clustering analyses and identified a poor-survival “neuronal” subtype in which the majority of tumors lacked small cell or neuroendocrine histology. Clustering by mRNA, long non-coding RNA (lncRNA), and miRNA expression converged to identify subsets with differential epithelial-mesenchymal transition status, carcinoma in situ scores, histologic features, and survival. Our analyses identified 5 expression subtypes that may stratify response to different treatments. A multiplatform analysis of 412 muscle-invasive bladder cancer patients provides insights into mutational profiles with prognostic value and establishes a framework associating distinct tumor subtypes with clinical options.},
 bibtype = {article},
 author = {Robertson, A. Gordon and Kim, Jaegil and Al-Ahmadie, Hikmat and Bellmunt, Joaquim and Guo, Guangwu and Cherniack, Andrew D. and Hinoue, Toshinori and Laird, Peter W. and Hoadley, Katherine A. and Akbani, Rehan and Castro, Mauro A.A. and Gibb, Ewan A. and Kanchi, Rupa S. and Gordenin, Dmitry A. and Shukla, Sachet A. and Sanchez-Vega, Francisco and Hansel, Donna E. and Czerniak, Bogdan A. and Reuter, Victor E. and Su, Xiaoping and de Sa Carvalho, Benilton and Chagas, Vinicius S. and Mungall, Karen L. and Sadeghi, Sara and Pedamallu, Chandra Sekhar and Lu, Yiling and Klimczak, Leszek J. and Zhang, Jiexin and Choo, Caleb and Ojesina, Akinyemi I. and Bullman, Susan and Leraas, Kristen M. and Lichtenberg, Tara M. and Wu, Catherine J. and Schultz, Nikolaus and Getz, Gad and Meyerson, Matthew and Mills, Gordon B. and McConkey, David J. and Albert, Monique and Alexopoulou, Iakovina and Ally, Adrian and Antic, Tatjana and Aron, Manju and Balasundaram, Miruna and Bartlett, John and Baylin, Stephen B. and Beaver, Allison and Birol, Inanc and Boice, Lori and Bootwalla, Moiz S. and Bowen, Jay and Bowlby, Reanne and Brooks, Denise and Broom, Bradley M. and Bshara, Wiam and Burks, Eric and Cárcano, Flavio M. and Carlsen, Rebecca and Carvalho, Benilton S. and Carvalho, Andre L. and Castle, Eric P. and Castro, Patricia and Catto, James W. and Chesla, David W. and Chuah, Eric and Chudamani, Sudha and Cortessis, Victoria K. and Cottingham, Sandra L. and Crain, Daniel and Curley, Erin and Daneshmand, Siamak and Demchok, John A. and Dhalla, Noreen and Djaladat, Hooman and Eckman, John and Egea, Sophie C. and Engel, Jay and Felau, Ina and Ferguson, Martin L. and Gardner, Johanna and Gastier-Foster, Julie M. and Gerken, Mark and Gomez-Fernandez, Carmen R. and Harr, Jodi and Hartmann, Arndt and Herbert, Lynn M. and Ho, Thai H. and Holt, Robert A. and Hutter, Carolyn M. and Jones, Steven J.M. and Jorda, Merce and Kahnoski, Richard J. and Kasaian, Katayoon and Kwiatkowski, David J. and Lai, Phillip H. and Lane, Brian R. and Lerner, Seth P. and Liu, Jia and Lolla, Laxmi and Lotan, Yair and Lucchesi, Fabiano R. and Ma, Yussanne and Machado, Roberto D. and Maglinte, Dennis T. and Mallery, David and Marra, Marco A. and Martin, Sue E. and Mayo, Michael and Meraney, Anoop and Moinzadeh, Alireza and Moore, Richard A. and Mora Pinero, Edna M. and Morris, Scott and Morrison, Carl and Mungall, Andrew J. and Myers, Jerome B. and Naresh, Rashi and O'Donnell, Peter H. and Parekh, Dipen J. and Parfitt, Jeremy and Paulauskis, Joseph D. and Sekhar Pedamallu, Chandra and Penny, Robert J. and Pihl, Todd and Porten, Sima and Quintero-Aguilo, Mario E. and Ramirez, Nilsa C. and Rathmell, W. Kimryn and Rieger-Christ, Kimberly and Saller, Charles and Salner, Andrew and Sandusky, George and Scapulatempo-Neto, Cristovam and Schein, Jacqueline E. and Schuckman, Anne K. and Shelton, Candace and Shelton, Troy and Simko, Jeff and Singh, Parminder and Sipahimalani, Payal and Smith, Norm D. and Sofia, Heidi J. and Sorcini, Andrea and Stanton, Melissa L. and Steinberg, Gary D. and Stoehr, Robert and Su, Xiaoping and Sullivan, Travis and Sun, Qiang and Tam, Angela and Tarnuzzer, Roy and Tarvin, Katherine and Taubert, Helge and Thiessen, Nina and Thorne, Leigh and Tse, Kane and Tucker, Kelinda and Van Den Berg, David J. and van Kessel, Kim E. and Wach, Sven and Wan, Yunhu and Wang, Zhining and Weinstein, John N. and Weisenberger, Daniel J. and Wise, Lisa and Wong, Tina and Wu, Ye and Yang, Liming and Zach, Leigh Anne and Zenklusen, Jean C. and Zhang, Jiashan (Julia) and Zmuda, Erik and Zwarthoff, Ellen C.},
 journal = {Cell},
 number = {3}
}

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A multiplatform analysis of 412 muscle-invasive bladder cancer patients provides insights into mutational profiles with prognostic value and establishes a framework associating distinct tumor subtypes with clinical options.},\n bibtype = {article},\n author = {Robertson, A. Gordon and Kim, Jaegil and Al-Ahmadie, Hikmat and Bellmunt, Joaquim and Guo, Guangwu and Cherniack, Andrew D. and Hinoue, Toshinori and Laird, Peter W. and Hoadley, Katherine A. and Akbani, Rehan and Castro, Mauro A.A. and Gibb, Ewan A. and Kanchi, Rupa S. and Gordenin, Dmitry A. and Shukla, Sachet A. and Sanchez-Vega, Francisco and Hansel, Donna E. and Czerniak, Bogdan A. and Reuter, Victor E. and Su, Xiaoping and de Sa Carvalho, Benilton and Chagas, Vinicius S. and Mungall, Karen L. and Sadeghi, Sara and Pedamallu, Chandra Sekhar and Lu, Yiling and Klimczak, Leszek J. and Zhang, Jiexin and Choo, Caleb and Ojesina, Akinyemi I. and Bullman, Susan and Leraas, Kristen M. and Lichtenberg, Tara M. and Wu, Catherine J. and Schultz, Nikolaus and Getz, Gad and Meyerson, Matthew and Mills, Gordon B. and McConkey, David J. and Albert, Monique and Alexopoulou, Iakovina and Ally, Adrian and Antic, Tatjana and Aron, Manju and Balasundaram, Miruna and Bartlett, John and Baylin, Stephen B. and Beaver, Allison and Birol, Inanc and Boice, Lori and Bootwalla, Moiz S. and Bowen, Jay and Bowlby, Reanne and Brooks, Denise and Broom, Bradley M. and Bshara, Wiam and Burks, Eric and Cárcano, Flavio M. and Carlsen, Rebecca and Carvalho, Benilton S. and Carvalho, Andre L. and Castle, Eric P. and Castro, Patricia and Catto, James W. and Chesla, David W. and Chuah, Eric and Chudamani, Sudha and Cortessis, Victoria K. and Cottingham, Sandra L. and Crain, Daniel and Curley, Erin and Daneshmand, Siamak and Demchok, John A. and Dhalla, Noreen and Djaladat, Hooman and Eckman, John and Egea, Sophie C. and Engel, Jay and Felau, Ina and Ferguson, Martin L. and Gardner, Johanna and Gastier-Foster, Julie M. and Gerken, Mark and Gomez-Fernandez, Carmen R. and Harr, Jodi and Hartmann, Arndt and Herbert, Lynn M. and Ho, Thai H. and Holt, Robert A. and Hutter, Carolyn M. and Jones, Steven J.M. and Jorda, Merce and Kahnoski, Richard J. and Kasaian, Katayoon and Kwiatkowski, David J. and Lai, Phillip H. and Lane, Brian R. and Lerner, Seth P. and Liu, Jia and Lolla, Laxmi and Lotan, Yair and Lucchesi, Fabiano R. and Ma, Yussanne and Machado, Roberto D. and Maglinte, Dennis T. and Mallery, David and Marra, Marco A. and Martin, Sue E. and Mayo, Michael and Meraney, Anoop and Moinzadeh, Alireza and Moore, Richard A. and Mora Pinero, Edna M. and Morris, Scott and Morrison, Carl and Mungall, Andrew J. and Myers, Jerome B. and Naresh, Rashi and O'Donnell, Peter H. and Parekh, Dipen J. and Parfitt, Jeremy and Paulauskis, Joseph D. and Sekhar Pedamallu, Chandra and Penny, Robert J. and Pihl, Todd and Porten, Sima and Quintero-Aguilo, Mario E. and Ramirez, Nilsa C. and Rathmell, W. 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