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1. Full Text Comprehensive molecular characterization of urothelial bladder carcinoma
by Weinstein, John N and Akbani, Rehan and Broom, Bradley M and Wang, Wenyi and Verhaak, Roeland G. W and McConkey, David and Lerner, Seth and Morgan, Margaret and Creighton, Chad J and Smith, Carolyn and Cherniack, Andrew D and Kim, Jaegil and Pedamallu, Chandra Sekhar and Noble, Michael S and Al-Ahmadie, Hikmat A and Reuter, Victor E and Rosenberg, Jonathan E and F.Bajorin, Dean and Bochner, Bernard H and Solit, David B and Koppie, Theresa and Robinson, Brian and Gordenin, Dmitry A and Fargo, David and Klimczak, Leszek J and Roberts, Steven A and Au, Jessie and Laird, Peter W and Hinoue, Toshinori and Schultz, Nikolaus and Ramirez, Ricardo and Hansel, Donna and Hoadley, Katherine A and Kim, William Y and Damrauer, Jeffrey S and Baylin, Stephen B and Mungall, Andrew J and Robertson, A. Gordon and Chu, Andy and Kwiatkowski, David J and Sougnez, Carrie and Cibulskis, Kristian and Lichtenstein, Lee and Sivachenko, Andrey and Stewart, Chip and Lawrence, Michael S and Getz, Gad and Lander, Eric and Gabrie, Stacey B and Donehower, Lawrence and Carter, Scott L and Saksena, Gordon and Schumacher, Steven E and Freeman, Samuel S and Jung, Joonil and Bhatt, Ami S and Pugh, Trevor and Beroukhim, Rameen and Meyerson, Matthew and Ally, Adrian and Balasundaram, Miruna and Butterfield, Yaron S. N and Dhalla, Noreen and Hirst, Carrie and Holt, Robert A and Jones, Steven J. M and Lee, Darlene and Li, Haiyan I and Marra, Marco A and Mayo, Michael and Moore, Richard A and Schein, Jacqueline E and Sipahimalani, Payal and Tam, Angela and Thiessen, Nina and Wong, Tina and Wye, Natasja and Bowlby, Reanne and Chuah, Eric and Guin, Ranabir and Shen, Hui and Bootwalla, Moiz S and Triche Jr, Timothy and Lai, Phillip H and Van Den Berg, David J and Weisenberger, Daniel J and Balu, Saianand and Bodenheimer, Tom and Hoyle, Alan P and Jefferys, Stuart R and Meng, Shaowu and Mose, Lisle E and Simons, Janae V and Soloway, Mathew G and Wu, Junyuan and Parker, Joel S and Hayes, D. Neil and Roach, Jeffrey and Buda, Elizabeth and Jones, Corbin D and ... and Canc Genome Atlas Res Network and Cancer Genome Atlas Research Network and The Cancer Genome Atlas Research Network
Nature, ISSN 0028-0836, 2014, Volume 507, Issue 7492, pp. 315 - 322
Urothelial carcinoma of the bladder is a common malignancy that causes approximately 150,000 deaths per year worldwide. So far, no molecularly targeted agents... 
GENE FUSIONS | GENOMES | MULTIDISCIPLINARY SCIENCES | KINASE | MUTATIONS | CANCER | FGFR | Protein Kinases - metabolism | Cell Cycle - genetics | Virus Integration - genetics | Protein Kinases - genetics | TOR Serine-Threonine Kinases - metabolism | Humans | RNA, Messenger - genetics | Oxidative Stress - genetics | MicroRNAs - metabolism | Chromatin - virology | Phosphatidylinositol 3-Kinases - metabolism | Signal Transduction - genetics | Urinary Bladder Neoplasms - drug therapy | Molecular Targeted Therapy | RNA, Messenger - metabolism | Down-Regulation - genetics | Urinary Bladder Neoplasms - virology | Urinary Bladder Neoplasms - genetics | Urinary Bladder Neoplasms - pathology | MicroRNAs - genetics | Proto-Oncogene Proteins c-akt - metabolism | Chromatin - genetics | Gene Expression Regulation, Neoplastic - genetics | Physiological aspects | Research | Molecular biology | Bladder cancer | Oncology, Experimental | Cancer | DNA methylation | Mutation | Kinases | Genes
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2. Full Text Integrated Molecular Characterization of Testicular Germ Cell Tumors
by Shen, Hui and Shih, Juliann and Hollern, Daniel P and Hollern, Daniel and Wang, Zhining and Wang, Linghua and Bowlby, Reanne and Tickoo, Satish K and Thorsson, Vésteinn and Thorsson, Vesteinn and Mungall, Andrew J and Newton, Yulia and Hegde, Apurva M and Armenia, Joshua and Sánchez-Vega, Francisco and Pluta, John and Pyle, Louise C and Mehra, Rohit and Reuter, Victor E and Godoy, Guilherme and Jones, Jeffrey and Jones, Steven J.M and Jones, Corbin D and Shelley, Carl S and Feldman, Darren and Feldman, Darren R and Vidal, Daniel O and Lessel, Davor and Kulis, Tomislav and Cárcano, Flavio M and Leraas, Kristen M and Lichtenberg, Tara M and Brooks, Denise and Cherniack, Andrew D and Cho, Juok and Heiman, David I and Kasaian, Katayoon and Liu, Jia and Liu, Wenbin and Liu, Minwei and Noble, Michael S and Xi, Liu and Zhang, Jiashan (Julia) and Zhang, Jiashan and Zhang, Hailei and Zhou, Wanding and ZenKlusen, Jean C and Hutter, Carolyn M and Felau, Ina and Schultz, Nikolaus and Getz, Gad and Meyerson, Matthew and Stuart, Joshua M and Wheeler, David A and Wheeler, David and Hughes, Daniel and Covington, Kyle and Jayaseelan, Joy C and Korchina, Viktoriya and Lewis, Lora and Hu, Jianhong and Doddapaneni, HarshaVardhan and Muzny, Donna and Gibbs, Richard and Hoadley, Katherine A and Vincent, Benjamin G and Chai, Shengjie and Smith, Christof C and Auman, J. Todd and Shi, Yan and Meng, Shaowu and Skelly, Tara and Tan, Donghui and Veluvolu, Umadevi and Mieczkowski, Piotr A and Wilkerson, Matthew D and Balu, Saianand and Bodenheimer, Tom and Hoyle, Alan P and Jefferys, Stuart R and Mose, Lisle E and Simons, Janae V and Soloway, Matthew G and Roach, Jeffrey and Parker, Joel S and Hayes, D. Neil and Perou, Amy H and Perou, Charles M and Saksena, Gordon and Cibulskis, Carrie and Schumacher, Steven E and Beroukhim, Rameen and Gabriel, Stacey B and Ally, Adrian and Balasundaram, Miruna and Carlsen, Rebecca and Cheung, Dorothy and Chuah, Eric and Dhalla, Noreen and Holt, Robert A and ... and Canc Genome Atlas Res Network and Cancer Genome Atlas Research Network
Cell Reports, ISSN 2211-1247, 06/2018, Volume 23, Issue 11, pp. 3392 - 3406
We studied 137 primary testicular germ cell tumors (TGCTs) using high-dimensional assays of genomic, epigenomic, transcriptomic, and proteomic features. These... 
exome sequencing | miR-375 | KIT | DNA methylation | seminoma | nonseminoma | copy number | testicular germ cell tumors | The Cancer Genome Atlas | ENDOGENOUS RETROVIRUSES | KIT GENE | ADOLESCENTS | HIGH-RESOLUTION | MUTATIONS | SEMINOMA | EXPRESSION | HUMAN CANCER | GENOME | CARCINOMA IN-SITU | CELL BIOLOGY | Index Medicus
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3. Full Text Comprehensive molecular characterization of gastric adenocarcinoma
by Bass, Adam J and Cancer Genome Atlas Research Network, Genome Atlas Research Network and Thorsson, Vesteinn and Shmulevich, Ilya and Reynolds, Sheila M and Miller, Michael and Bernard, Brady and Hinoue, Toshinori and Laird, Peter W and Curtis, Christina and Shen, Hui and Weisenberger, Daniel J and Schultz, Nikolaus and Shen, Ronglai and Weinhold, Nils and Kelsen, David P and Bowlby, Reanne and Chu, Andy and Kasaian, Katayoon and Mungall, Andrew J and Robertson, A. Gordon and Sipahimalani, Payal and Cherniack, Andrew D and Getz, Gad and Liu, Yingchun and Noble, Michael S and Pedamallu, Chandra and Sougnez, Carrie and Taylor-Weiner, Amaro and Akbani, Rehan and Lee, Ju-Seog and Liu, Wenbin and Mills, Gordon B and Yang, Da and Zhang, Wei and Pantazi, Angeliki and Parfenov, Michael and Gulley, Margaret and Piazuelo, M. Blanca and Schneider, Barbara G and Kim, Jihun and Boussioutas, Alex and Sheth, Margi and Demchok, John A and Rabkin, Charles S and Willis, Joseph E and Ng, Sam and Garman, Katherine and Beer, David G and Pennathur, Arjun and Raphael, Benjamin J and Wu, Hsin-Ta and Odze, Robert and Kim, Hark K and Bowen, Jay and Leraas, Kristen M and Lichtenberg, Tara M and Weaver, Stephanie and McLellan, Michael and Wiznerowicz, Maciej and Sakai, Ryo and Lawrence, Michael S and Cibulskis, Kristian and Lichtenstein, Lee and Fisher, Sheila and Gabriel, Stacey B and Lander, Eric S and Ding, Li and Niu, Beifang and Ally, Adrian and Balasundaram, Miruna and Birol, Inanc and Brooks, Denise and Butterfield, Yaron S. N and Carlsen, Rebecca and Chu, Justin and Chuah, Eric and Chun, Hye-Jung E and Clarke, Amanda and Dhalla, Noreen and Guin, Ranabir and Holt, Robert A and Jones, Steven J. M and Lee, Darlene and Li, Haiyan A and Lim, Emilia and Ma, Yussanne and Marra, Marco A and Mayo, Michael and Moore, Richard A and Mungall, Karen L and Nip, Ka Ming and Schein, Jacqueline E and Tam, Angela and Thiessen, Nina and Beroukhim, Rameen and Carter, Scott L and Cho, Juok and DiCara, Daniel and Frazer, Scott and ... and Canc Genome Atlas Res Network and Cancer Genome Atlas Research Network and The Cancer Genome Atlas Research Network
Nature, ISSN 0028-0836, 2014, Volume 513, Issue 7517, pp. 202 - 209
Gastric cancer is a leading cause of cancer deaths, but analysis of molecular and clinical characteristics has been complicated by histological and... 
EXOME | METHYLATION | SUBTYPES | MULTIDISCIPLINARY SCIENCES | KINASE | GENE-EXPRESSION | CLASSIFICATION | EBV-INFECTION | CANCER | SOMATIC MUTATIONS | CELL LYMPHOMAS | Stomach Neoplasms - genetics | Herpesvirus 4, Human - genetics | Stomach Neoplasms - virology | Adenocarcinoma - classification | Humans | Gene Expression Regulation, Neoplastic | Male | Proteome | Adenocarcinoma - virology | Genome, Human - genetics | Herpesvirus 4, Human - isolation & purification | Female | Adenocarcinoma - genetics | Mutation | Stomach Neoplasms - classification | Adenocarcinoma | Molecular genetics | Causes of | Genetic research | Genetic aspects | Research | Stomach cancer | Mortality | Genomes | Kinases | Gene expression | Cancer therapies | Proteins | Classification | Cell cycle | DNA methylation | Genetic testing | Deoxyribonucleic acid--DNA | Tumors
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4. Full Text Comprehensive and Integrative Genomic Characterization of Hepatocellular Carcinoma
by Ally, Adrian and Balasundaram, Miruna and Carlsen, Rebecca and Chuah, Eric and Clarke, Amanda and Dhalla, Noreen and Holt, Robert A and Jones, Steven J.M and Jones, Corbin D and Lee, Ju-Seog and Lee, Darlene and Lee, Sandra and Ma, Yussanne and Marra, Marco A and Mayo, Michael and Moore, Richard A and Moore, David D and Mungall, Karen and Mungall, Andrew J and Schein, Jacqueline E and Sipahimalani, Payal and Tam, Angela and Thiessen, Nina and Cheung, Dorothy and Wong, Tina and Brooks, Denise and Robertson, A. Gordon and Bowlby, Reanne and Sadeghi, Sara and Xi, Liu and Covington, Kyle and Shinbrot, Eve and Wheeler, David A and Gibbs, Richard A and Donehower, Lawrence A and Wang, Zhining and Wang, Min and Wang, Linghua and Bowen, Jay and Gastier-Foster, Julie M and Gerken, Mark and Helsel, Carmen and Leraas, Kristen M and Lichtenberg, Tara M and Ramirez, Nilsa C and Wise, Lisa and Zmuda, Erik and Gabriel, Stacey B and Meyerson, Matthew and Cibulskis, Carrie and Murray, Bradley A and Shih, Juliann and Beroukhim, Rameen and Cherniack, Andrew D and Schumacher, Steven E and Saksena, Gordon and Pedamallu, Chandra Sekhar and Chin, Lynda and Getz, Gad and Noble, Michael and Zhang, Jiashan and Zhang, Hongxin and Zhang, Jianping and Zhang, Wei and Zhang, Hailei and Heiman, David and Cho, Juok and Gehlenborg, Nils and Voet, Douglas and Lin, Pei and Frazer, Scott and Defreitas, Timothy and Meier, Sam and Lawrence, Michael and Kim, Jaegil and Creighton, Chad J and Muzny, Donna and Doddapaneni, HarshaVardhan and Hu, Jianhong and Morton, Donna and Korchina, Viktoriya and Han, Yi and Dinh, Huyen and Lewis, Lora and Bellair, Michelle and Liu, Jia and Liu, Yuexin and Liu, Xiuping and Santibanez, Jireh and Glenn, Robert and Hale, Walker and Parker, Joel S and Wilkerson, Matthew D and Hayes, D. Neil and Reynolds, Sheila M and Shmulevich, Ilya and Iype, Lisa and Makhlouf, Hala and Torbenson, Michael S and Kakar, Sanjay and ... and Canc Genome Atlas Res Network and Cancer Genome Atlas Research Network and Cancer Genome Atlas Research Network. Electronic address: wheeler@bcm.edu
Cell, ISSN 0092-8674, 06/2017, Volume 169, Issue 7, pp. 1327 - 1341.e23
Liver cancer has the second highest worldwide cancer mortality rate and has limited therapeutic options. We analyzed 363 hepatocellular carcinoma (HCC) cases... 
IDH1/2 | stem cell phenotype | significantly mutated genes | sonic hedgehog signaling | promoter hypermethylation | cancer subtyping | TP53 | hepatocellular carcinoma | expression profile | metabolic reprogramming | ACCURATE | GENE | SIGNATURES | DNA | QUANTIFICATION | BIOCHEMISTRY & MOLECULAR BIOLOGY | MUTATIONAL LANDSCAPE | PHENOTYPE | EXPRESSION | DISCOVERY | PREDICTION | CELL BIOLOGY | Liver Neoplasms - virology | DNA Methylation | Liver Neoplasms - genetics | Carcinoma, Hepatocellular - genetics | Genomics | Humans | Isocitrate Dehydrogenase - genetics | Carcinoma, Hepatocellular - virology | MicroRNAs - genetics | Mutation | RNA | Gene mutations | Analysis | Genes | Genetic aspects | Hepatoma | Nucleotide sequencing | Tumor proteins | Methylation | Gene expression | DNA sequencing | Cancer | Mortality | Stem cells | Liver cancer | TERT | CDKN2A | HCC subtyping | IDH1 | miR-122 | hepatocellular carcinoma (HCC) | CTNNB1 | immune checkpoint proteins
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5. Full Text The cancer genome atlas pan-cancer analysis project
by Weinstein, John N and Collisson, Eric A and Mills, Gordon B and Shaw, Kenna R Mills and Ozenberger, Brad A and Ellrott, Kyle and Sander, Chris and Stuart, Joshua M and Chang, Kyle and Creighton, Chad J and Davis, Caleb and Donehower, Lawrence and Drummond, Jennifer and Wheeler, David and Ally, Adrian and Balasundaram, Miruna and Birol, Inanc and Butterfield, Yaron S.N and Chu, Andy and Chuah, Eric and Chun, Hye-Jung E and Dhalla, Noreen and Guin, Ranabir and Hirst, Martin and Hirst, Carrie and Holt, Robert A and Jones, Steven J.M and Lee, Darlene and Li, Haiyan I and Marra, Marco A and Mayo, Michael and Moore, Richard A and Mungall, Andrew J and Robertson, A Gordon and Schein, Jacqueline E and Sipahimalani, Payal and Tam, Angela and Thiessen, Nina and Varhol, Richard J and Beroukhim, Rameen and Bhatt, Ami S and Brooks, Angela N and Cherniack, Andrew D and Freeman, Samuel S and Gabriel, Stacey B and Helman, Elena and Jung, Joonil and Meyerson, Matthew and Ojesina, Akinyemi I and Pedamallu, Chandra Sekhar and Saksena, Gordon and Schumacher, Steven E and Tabak, Barbara and Zack, Travis and Lander, Eric S and Bristow, Christopher A and Hadjipanayis, Angela and Haseley, Psalm and Kucherlapati, Raju and Lee, Semin and Lee, Eunjung and Luquette, Lovelace J and Mahadeshwar, Harshad S and Pantazi, Angeliki and Parfenov, Michael and Park, Peter J and Protopopov, Alexei and Ren, Xiaojia and Santoso, Netty and Seidman, Jonathan and Seth, Sahil and Song, Xingzhi and Tang, Jiabin and Xi, Ruibin and Xu, Andrew W and Yang, Lixing and Zeng, Dong and Auman, J Todd and Balu, Saianand and Buda, Elizabeth and Fan, Cheng and Hoadley, Katherine A and Jones, Corbin D and Meng, Shaowu and Mieczkowski, Piotr A and Parker, Joel S and Perou, Charles M and Roach, Jeffrey and Shi, Yan and Silva, Grace O and Tan, Donghui and Veluvolu, Umadevi and Waring, Scot and Wilkerson, Matthew D and Wu, Junyuan and Zhao, Wei and Bodenheimer, Tom and Hayes, D Neil and Hoyle, Alan P and Jeffreys, Stuart R and ... and Canc Genome Atlas Res Network and Cancer Genome Atlas Research Network and The Cancer Genome Atlas Research Network and Department of Mathematical Sciences, Mathematical Statistics and Naturvetenskapliga fakulteten and Institutionen för matematiska vetenskaper, matematisk statistik and Faculty of Sciences and Göteborgs universitet and Gothenburg University
Nature Genetics, ISSN 1061-4036, 10/2013, Volume 45, Issue 10, pp. 1113 - 1120
The Cancer Genome Atlas (TCGA) Research Network has profiled and analyzed large numbers of human tumors to discover molecular aberrations at the DNA, RNA,... 
ONCOGENE | FUSION | GENE | GENETICS & HEREDITY | MUTATIONS | IDENTIFICATION | HALLMARKS | Gene Expression Profiling | Neoplasms - genetics | Genome | Neoplasms - pathology | Humans | Medical research | Breast cancer | Mutation | Genomics | Tumors | Genetik | Medicinsk genetik | Medical Genetics | Genetics
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