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The Lancet (British edition), ISSN 0140-6736, 2015, Volume 385, Issue 9977, pp. 1511 - 1518
Journal Article
by Gibbs, David L and Brown, Scott D and Ou Yang, Tai-Hsien and Porta-Pardo, Eduard and Gao, Galen F and Plaisier, Christopher L and Ziv, Elad and Sivakumar, I.K. Ashok and Gentles, Andrew J and Malhotra, Raunaq and Farshidfar, Farshad and Colaprico, Antonio and Parker, Joel S and Mose, Lisle E and Vo, Nam Sy and Liu, Jianfang and Dhankani, Varsha and Reynolds, Sheila M and Cherniack, Andrew D and Anastassiou, Dimitris and Bedognetti, Davide and Mokrab, Younes and Rao, Arvind and Hu, Hai and Noushmehr, Houtan and Pedamallu, Chandra Sekhar and Bullman, Susan and Lamb, Andrew and Zhou, Wanding and Choueiri, Toni K and Weinstein, John N and Guinney, Justin and Rabkin, Charles S and Lazar, Alexander J and Serody, Jonathan S and Vincent, Benjamin G and Demchok, John A and Kasapi, Melpomeni and Hutter, Carolyn M and Sofia, Heidi J and Tarnuzzer, Roy and Wang, Zhining and Yang, Liming and Zenklusen, Jean C and Zhang, Jiashan (Julia) and Chudamani, Sudha and Naresh, Rashi and Pihl, Todd and Sun, Qiang and Wan, Yunhu and Wu, Ye and Cho, Juok and DeFreitas, Timothy and Frazer, Scott and Gehlenborg, Nils and Getz, Gad and Heiman, David I and Lawrence, Michael S and Meier, Sam and Noble, Michael S and Saksena, Gordon and Voet, Doug and Zhang, Hailei and Chambwe, Nyasha and Knijnenburg, Theo and Kramer, Roger and Leinonen, Kalle and Miller, Michael and Zhang, Wei and Akbani, Rehan and Broom, Bradley M and Hegde, Apurva M and Kanchi, Rupa S and Liang, Han and Ling, Shiyun and Liu, Wenbin and Lu, Yiling and Mills, Gordon B and Ng, Kwok-Shing and Ryan, Michael and Zhang, Jiexin and Abeshouse, Adam and Chakravarty, Debyani and Chatila, Walid K and de Bruijn, Ino and Gross, Benjamin E and Heins, Zachary J and La, Konnor and Ladanyi, Marc and Ochoa, Angelica and Phillips, Sarah M and Reznik, Ed and Sander, Chris and Sumer, S. Onur and Wang, Jioajiao and Zhang, Hongxin and Anur, Pavana and Stuart, Joshua M and Wong, Christopher K and Hayes, D. Neil and ... and The Cancer Genome Atlas Research Network and Canc Genome Atlas Res Network and Cancer Genome Atlas Research Network
Immunity (Cambridge, Mass.), ISSN 1074-7613, 04/2018, Volume 48, Issue 4, pp. 812 - 830.e14
We performed an extensive immunogenomic analysis of more than 10,000 tumors comprising 33 diverse cancer types by utilizing data compiled by TCGA. Across... 
tumor immunology | immunotherapy | cancer genomics | integrative network analysis | immuno-oncology | tumor microenvironment | immune subtypes | immunomodulatory | Immunology | Infectious Diseases | Immunology and Allergy | GENOMIC ANALYSES | INFORMATION | T-CELL-RECEPTOR | REGULATORY NETWORK | CLASSIFICATION | IMMUNOLOGY | SEQUENCING DATA | SOMATIC MUTATIONS | COMPREHENSIVE ANALYSIS | PREDICTION | REVEALS | Transforming Growth Factor beta - immunology | Prognosis | Humans | Middle Aged | Th1-Th2 Balance - physiology | Male | Neoplasms - classification | Wound Healing - immunology | Young Adult | Transforming Growth Factor beta - genetics | Neoplasms - genetics | Neoplasms - immunology | Interferon-gamma - immunology | Adolescent | Aged, 80 and over | Adult | Female | Aged | Interferon-gamma - genetics | Wound Healing - genetics | Genomics - methods | Child | Macrophages - immunology | Cell proliferation | Cluster analysis | Transcription | Copy number | p53 Protein | Lung cancer | Genomics | Aneuploidy | Lymphocytes T | Genomes | Cell interactions | Macrophages | Immunotherapy | DNA methylation | miRNA | Deoxyribonucleic acid--DNA | Immune system | Medical research | Wound healing | Immunomodulation | Stockholders | Inflammation | T cell receptors | Communications networks | Gene expression | White blood cells | Inventors | Medical prognosis | γ-Interferon | Mutation | Cancer | Tumors | Immune Subtypes | Integrative Network Analysis | Cancer Genomics | Immuno-oncology | Tumor immunology
Journal Article
by Wang, Linghua and Zimmermann, Michael T and Gao, Galen F and Fan, Huihui and Shen, Hui and Way, Gregory P and Greene, Casey S and Feng, Bin and Donehower, Lawrence A and Miller, Chase and Shen, Yang and Chen, Haoran and Kim, Pora and Liu, Jianfang and Bailey, Matthew H and Yau, Christina and Wolf, Denise and Zhao, Zhongming and Weinstein, John N and Li, Lei and Ding, Li and Mills, Gordon B and Laird, Peter W and Wheeler, David A and Monnat, Raymond J and Xiao, Yonghong and Wang, Chen and Caesar-Johnson, Samantha J and Demchok, John A and Ferguson, Martin L and Hutter, Carolyn M and Tarnuzzer, Roy and Wang, Zhining and Yang, Liming and Zenklusen, Jean C and Liu, Jia and Lolla, Laxmi and Naresh, Rashi and Pihl, Todd and Sun, Qiang and Cho, Juok and DeFreitas, Timothy and Frazer, Scott and Gehlenborg, Nils and Getz, Gad and Kim, Jaegil and Lawrence, Michael S and Meier, Sam and Bernard, Brady and Dhankani, Varsha and Knijnenburg, Theo and Kramer, Roger and Reynolds, Sheila and Thorsson, Vesteinn and Zhang, Wei and Hegde, Apurva M and Ju, Zhenlin and Korkut, Anil and Li, Jun and Ling, Shiyun and Lu, Yiling and Rao, Arvind and Ryan, Michael and Zhang, Jiexin and Armenia, Joshua and Chakravarty, Debyani and de Bruijn, Ino and Gao, Jianjiong and Gross, Benjamin E and Heins, Zachary J and Ladanyi, Marc and Luna, Augustin and Nissan, Moriah G and Ochoa, Angelica and Reznik, Ed and Sanchez-Vega, Francisco and Sander, Chris and Schultz, Nikolaus and Sumer, S. Onur and Sun, Yichao and Wang, Jioajiao and Zhang, Hongxin and Anur, Pavana and Peto, Myron and Spellman, Paul and Benz, Christopher and Stuart, Joshua M and Wong, Christopher K and Hayes, D. Neil and Parker, Joel S and Wilkerson, Matthew D and Ally, Adrian and Balasundaram, Miruna and Bowlby, Reanne and Brooks, Denise and Carlsen, Rebecca and Dhalla, Noreen and Holt, Robert and Jones, Steven J.M and Kasaian, Katayoon and ... and The Cancer Genome Atlas Research Network and Canc Genome Atlas Res Network and Cancer Genome Atlas Research Network and Argonne National Lab. (ANL), Argonne, IL (United States). Advanced Photon Source (APS)
Cell reports (Cambridge), ISSN 2211-1247, 04/2018, Volume 23, Issue 1, pp. 239 - 254.e6
Journal Article
by Farshidfar, Farshad and Zheng, Siyuan and Gingras, Marie-Claude and Newton, Yulia and Shih, Juliann and Robertson, A. Gordon and Hinoue, Toshinori and Hoadley, Katherine A and Gibb, Ewan A and Roszik, Jason and Covington, Kyle R and Wu, Chia-Chin and Shinbrot, Eve and Stransky, Nicolas and Hegde, Apurva and Yang, Ju Dong and Reznik, Ed and Sadeghi, Sara and Pedamallu, Chandra Sekhar and Ojesina, Akinyemi I and Hess, Julian M and Auman, J. Todd and Rhie, Suhn K and Bowlby, Reanne and Borad, Mitesh J and Zhu, Andrew X and Stuart, Josh M and Sander, Chris and Akbani, Rehan and Cherniack, Andrew D and Deshpande, Vikram and Mounajjed, Taofic and Foo, Wai Chin and Torbenson, Michael S and Kleiner, David E and Laird, Peter W and Wheeler, David A and McRee, Autumn J and Bathe, Oliver F and Andersen, Jesper B and Bardeesy, Nabeel and Roberts, Lewis R and Kwong, Lawrence N and Allotey, Loretta K and Ally, Adrian and Alvaro, Domenico and Appelbaum, Elizabeth L and Arora, Arshi and Balasundaram, Miruna and Balu, Saianand and Baylin, Stephen B and Beroukhim, Rameen and Berrios, Mario and Bodenheimer, Tom and Boice, Lori and Bootwalla, Moiz S and Bowen, Jay and Bragazzi, Maria Consiglia and Brooks, Denise and Cardinale, Vincenzo and Carlsen, Rebecca and Carpino, Guido and Carvalho, Andre L and Chaiteerakij, Roongruedee and Chandan, Vishal C and Chin, Lynda and Cho, Juok and Choe, Gina and Chuah, Eric and Chudamani, Sudha and Cibulskis, Carrie and Cordes, Matthew G and Crain, Daniel and Curley, Erin and De Rose, Agostino Maria and Defreitas, Timothy and Demchok, John A and Dhalla, Noreen and Ding, Li and Evason, Kimberley and Felau, Ina and Ferguson, Martin L and Franchitto, Antonio and Frazer, Scott and Fronick, Catrina C and Fulton, Lucinda A and Fulton, Robert S and Gabriel, Stacey B and Gardner, Johanna and Gastier-Foster, Julie M and Gaudio, Eugenio and Gehlenborg, Nils and Genovese, Giannicola and Gerken, Mark and Getz, Gad and Giama, Nasra H and Gibbs, Richard A and Giuliante, Felice and Grazi, Gian Luca and Hayes, D. Neil and ... and The Cancer Genome Atlas Network and Canc Genome Atlas Network and Cancer Genome Atlas Network
Cell reports (Cambridge), ISSN 2211-1247, 2017, Volume 18, Issue 11, pp. 2780 - 2794
Journal Article
by Farshidfar, Farshad and Zheng, Siyuan and Gingras, Marie-Claude and Newton, Yulia and Shih, Juliann and Robertson, A. Gordon and Hinoue, Toshinori and Hoadley, Katherine A and Gibb, Ewan A and Roszik, Jason and Covington, Kyle R and Wu, Chia-Chin and Shinbrot, Eve and Stransky, Nicolas and Hegde, Apurva and Yang, Ju Dong and Reznik, Ed and Sadeghi, Sara and Pedamallu, Chandra Sekhar and Ojesina, Akinyemi I and Hess, Julian M and Auman, J. Todd and Rhie, Suhn K and Bowlby, Reanne and Borad, Mitesh J and Akbani, Rehan and Allotey, Loretta K and Ally, Adrian and Alvaro, Domenico and Andersen, Jesper B and Appelbaum, Elizabeth L and Arora, Arshi and Balasundaram, Miruna and Balu, Saianand and Bardeesy, Nabeel and Bathe, Oliver F and Baylin, Stephen B and Beroukhim, Rameen and Berrios, Mario and Bodenheimer, Tom and Boice, Lori and Bootwalla, Moiz S and Bowen, Jay and Bragazzi, Maria Consiglia and Brooks, Denise and Cardinale, Vincenzo and Carlsen, Rebecca and Carpino, Guido and Carvalho, Andre L and Chaiteerakij, Roongruedee and Chandan, Vishal C and Cherniack, Andrew D and Chin, Lynda and Cho, Juok and Choe, Gina and Chuah, Eric and Chudamani, Sudha and Cibulskis, Carrie and Cordes, Matthew G and Crain, Daniel and Curley, Erin and De Rose, Agostino Maria and Defreitas, Timothy and Demchok, John A and Deshpande, Vikram and Dhalla, Noreen and Ding, Li and Evason, Kimberley and Felau, Ina and Ferguson, Martin L and Foo, Wai Chin and Franchitto, Antonio and Frazer, Scott and Fronick, Catrina C and Fulton, Lucinda A and Fulton, Robert S and Gabriel, Stacey B and Gardner, Johanna and Gastier-Foster, Julie M and Gaudio, Eugenio and Gehlenborg, Nils and Genovese, Giannicola and Gerken, Mark and Getz, Gad and Giama, Nasra H and Gibbs, Richard A and Giuliante, Felice and Grazi, Gian Luca and Hayes, D. Neil and Hegde, Apurva M and Heiman, David I and Holbrook, Andrea and Holt, Robert A and Hoyle, Alan P and Huang, Mei and Hutter, Carolyn M and Jefferys, Stuart R and Jones, Steven J.M and Jones, Corbin D and Kasaian, Katayoon and ...
Cell reports (Cambridge), 06/2017, Volume 19, Issue 13, pp. 2878 - 2880
(Cell Reports 18, 2780–2794; March 14, 2017) In the originally published version of this article, the sample names in Figure 5D were incorrectly ordered during... 
Journal Article
by Raphael, Benjamin J and Hruban, Ralph H and Aguirre, Andrew J and Moffitt, Richard A and Yeh, Jen Jen and Stewart, Chip and Robertson, A. Gordon and Cherniack, Andrew D and Gupta, Manaswi and Getz, Gad and Gabriel, Stacey B and Meyerson, Matthew and Cibulskis, Carrie and Fei, Suzanne S and Hinoue, Toshinori and Shen, Hui and Laird, Peter W and Ling, Shiyun and Lu, Yiling and Mills, Gordon B and Akbani, Rehan and Loher, Phillipe and Londin, Eric R and Rigoutsos, Isidore and Telonis, Aristeidis G and Gibb, Ewan A and Goldenberg, Anna and Mezlini, Aziz M and Hoadley, Katherine A and Collisson, Eric and Lander, Eric and Murray, Bradley A and Hess, Julian and Rosenberg, Mara and Bergelson, Louis and Zhang, Hailei and Cho, Juok and Tiao, Grace and Kim, Jaegil and Livitz, Dimitri and Leshchiner, Ignaty and Reardon, Brendan and Van Allen, Eliezer and Kamburov, Atanas and Beroukhim, Rameen and Saksena, Gordon and Schumacher, Steven E and Noble, Michael S and Heiman, David I and Gehlenborg, Nils and Lawrence, Michael S and Adsay, Volkan and Petersen, Gloria and Klimstra, David and Bardeesy, Nabeel and Leiserson, Mark D.M and Bowlby, Reanne and Kasaian, Katayoon and Birol, Inanc and Mungall, Karen L and Sadeghi, Sara and Weinstein, John N and Spellman, Paul T and Liu, Yuexin and Amundadottir, Laufey T and Tepper, Joel and Singhi, Aatur D and Dhir, Rajiv and Paul, Drwiega and Smyrk, Thomas and Zhang, Lizhi and Kim, Paula and Bowen, Jay and Frick, Jessica and Gastier-Foster, Julie M and Gerken, Mark and Lau, Kevin and Leraas, Kristen M and Lichtenberg, Tara M and Ramirez, Nilsa C and Renkel, Jeremy and Sherman, Mark and Wise, Lisa and Yena, Peggy and Zmuda, Erik and Shih, Juliann and Ally, Adrian and Balasundaram, Miruna and Carlsen, Rebecca and Chu, Andy and Chuah, Eric and Clarke, Amanda and Dhalla, Noreen and Holt, Robert A and Jones, Steven J.M and Lee, Darlene and Ma, Yussanne and Marra, Marco A and Mayo, Michael and Moore, Richard A and ... and The Cancer Genome Atlas Research Network and Canc Genome Atlas Res Network and Cancer Genome Atlas Research Network. Electronic address: andrew_aguirre@dfci.harvard.edu and Cancer Genome Atlas Research Network
Cancer cell, ISSN 1535-6108, 2017, Volume 32, Issue 2, pp. 185 - 203.e13
Journal Article