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by Davis, Caleb F and Ricketts, Christopher J and Wang, Min and Yang, Lixing and Cherniack, Andrew D and Shen, Hui and Buhay, Christian and Kang, Hyojin and Kim, Sang Cheol and Fahey, Catherine C and Hacker, Kathryn E and Bhanot, Gyan and Gordenin, Dmitry A and Chu, Andy and Gunaratne, Preethi H and Biehl, Michael and Seth, Sahil and Kaipparettu, Benny A and Bristow, Christopher A and Donehower, Lawrence A and Wallen, Eric M and Smith, Angela B and Tickoo, Satish K and Tamboli, Pheroze and Reuter, Victor and Schmidt, Laura S and Hsieh, James J and Choueiri, Toni K and Hakimi, A. Ari and Chin, Lynda and Meyerson, Matthew and Kucherlapati, Raju and Park, Woong-Yang and Robertson, A. Gordon and Laird, Peter W and Henske, Elizabeth P and Kwiatkowski, David J and Park, Peter J and Morgan, Margaret and Shuch, Brian and Muzny, Donna and Wheeler, David A and Linehan, W. Marston and Gibbs, Richard A and Rathmell, W. Kimryn and Creighton, Chad J and Creighton, Chad J and Wheeler, David A and Gibbs, Richard A and Signoretti, Sabina and Robertson, A. Gordon and Henske, Elizabeth P and Kwiatkowski, David J and Ricketts, Christopher and Linehan, W. Marston and Seiler, Michael and Rathmell, W. Kimryn and Laird, Peter W and Chao, Hsu and Dahdouli, Mike and Xi, Liu and Kakkar, Nipun and Reid, Jeffrey G and Downs, Brittany and Drummond, Jennifer and Morton, Donna and Doddapaneni, Harsha and Lewis, Lora and English, Adam and Meng, Qingchang and Kovar, Christie and Wang, Qiaoyan and Hale, Walker and Hawes, Alicia and Kalra, Divya and Walker, Kimberly and Murray, Bradley A and Sougnez, Carrie and Saksena, Gordon and Carter, Scott L and Schumacher, Steven E and Tabak, Barbara and Zack, Travis I and Getz, Gad and Beroukhim, Rameen and Gabriel, Stacey B and Ally, Adrian and Balasundaram, Miruna and Birol, Inanc and Brooks, Denise and Butterfield, Yaron S.N and Chuah, Eric and Clarke, Amanda and Dhalla, Noreen and Guin, Ranabir and Holt, Robert A and Kasaian, Katayoon and Lee, Darlene and Li, Haiyan I and Lim, Emilia and ... and The Cancer Genome Atlas Research Network and Canc Genome Atlas Res Network
Cancer cell, ISSN 1535-6108, 09/2014, Volume 26, Issue 3, pp. 319 - 330
Journal Article
by Ceccarelli, Michele and Barthel, Floris P and Malta, Tathiane M and Sabedot, Thais S and Salama, Sofie R and Murray, Bradley A and Morozova, Olena and Newton, Yulia and Radenbaugh, Amie and Pagnotta, Stefano M and Anjum, Samreen and Wang, Jiguang and Manyam, Ganiraju and Zoppoli, Pietro and Ling, Shiyun and Rao, Arjun A and Grifford, Mia and Cherniack, Andrew D and Zhang, Hailei and Poisson, Laila and Carlotti, Carlos Gilberto and Tirapelli, Daniela Pretti da Cunha and Rao, Arvind and Mikkelsen, Tom and Lau, Ching C and Yung, W.K. Alfred and Rabadan, Raul and Huse, Jason and Brat, Daniel J and Lehman, Norman L and Barnholtz-Sloan, Jill S and Zheng, Siyuan and Hess, Kenneth and Rao, Ganesh and Meyerson, Matthew and Beroukhim, Rameen and Cooper, Lee and Akbani, Rehan and Wrensch, Margaret and Haussler, David and Aldape, Kenneth D and Laird, Peter W and Gutmann, David H and Noushmehr, Houtan and Iavarone, Antonio and Verhaak, Roel G.W and Arachchi, Harindra and Auman, J. Todd and Balasundaram, Miruna and Balu, Saianand and Barnett, Gene and Baylin, Stephen and Bell, Sue and Benz, Christopher and Bir, Natalie and Black, Keith L and Bodenheimer, Tom and Boice, Lori and Bootwalla, Moiz S and Bowen, Jay and Bristow, Christopher A and Butterfield, Yaron S.N and Chen, Qing-Rong and Chin, Lynda and Cho, Juok and Chuah, Eric and Chudamani, Sudha and Coetzee, Simon G and Cohen, Mark L and Colman, Howard and Couce, Marta and D’Angelo, Fulvio and Davidsen, Tanja and Davis, Amy and Demchok, John A and Devine, Karen and Ding, Li and Duell, Rebecca and Elder, J. Bradley and Eschbacher, Jennifer M and Fehrenbach, Ashley and Ferguson, Martin and Frazer, Scott and Fuller, Gregory and Fulop, Jordonna and Gabriel, Stacey B and Garofano, Luciano and Gastier-Foster, Julie M and Gehlenborg, Nils and Gerken, Mark and Getz, Gad and Giannini, Caterina and Gibson, William J and Hadjipanayis, Angela and Hayes, D. Neil and Heiman, David I and Hermes, Beth and Hilty, Joe and Hoadley, Katherine A and Hoyle, Alan P and ... and TCGA Research Network and TCGA Res Network
Cell (Cambridge), ISSN 0092-8674, 01/2016, Volume 164, Issue 3, pp. 550 - 563
Journal Article
by Abeshouse, Adam and Ahn, Jaeil and Akbani, Rehan and Ally, Adrian and Amin, Samirkumar and Andry, Christopher D and Annala, Matti and Aprikian, Armen and Armenia, Joshua and Arora, Arshi and Auman, J. Todd and Balasundaram, Miruna and Balu, Saianand and Barbieri, Christopher E and Bauer, Thomas and Benz, Christopher C and Bergeron, Alain and Beroukhim, Rameen and Berrios, Mario and Bivol, Adrian and Bodenheimer, Tom and Boice, Lori and Bootwalla, Moiz S and Borges dos Reis, Rodolfo and Boutros, Paul C and Bowen, Jay and Bowlby, Reanne and Boyd, Jeffrey and Bradley, Robert K and Breggia, Anne and Brimo, Fadi and Bristow, Christopher A and Brooks, Denise and Broom, Bradley M and Bryce, Alan H and Bubley, Glenn and Burks, Eric and Butterfield, Yaron S.N and Button, Michael and Canes, David and Carlotti, Carlos G and Carlsen, Rebecca and Carmel, Michel and Carroll, Peter R and Carter, Scott L and Cartun, Richard and Carver, Brett S and Chan, June M and Chang, Matthew T and Chen, Yu and Cherniack, Andrew D and Chevalier, Simone and Chin, Lynda and Cho, Juok and Chu, Andy and Chuah, Eric and Chudamani, Sudha and Cibulskis, Kristian and Ciriello, Giovanni and Clarke, Amanda and Cooperberg, Matthew R and Corcoran, Niall M and Costello, Anthony J and Cowan, Janet and Crain, Daniel and Curley, Erin and David, Kerstin and Demchok, John A and Demichelis, Francesca and Dhalla, Noreen and Dhir, Rajiv and Doueik, Alexandre and Drake, Bettina and Dvinge, Heidi and Dyakova, Natalya and Felau, Ina and Ferguson, Martin L and Frazer, Scott and Freedland, Stephen and Fu, Yao and Gabriel, Stacey B and Gao, Jianjiong and Gardner, Johanna and Gastier-Foster, Julie M and Gehlenborg, Nils and Gerken, Mark and Gerstein, Mark B and Getz, Gad and Godwin, Andrew K and Gopalan, Anuradha and Graefen, Markus and Graim, Kiley and Gribbin, Thomas and Guin, Ranabir and Gupta, Manaswi and Hadjipanayis, Angela and Haider, Syed and Hamel, Lucie and Hayes, D. Neil and Heiman, David I and ... and The Cancer Genome Atlas Research Network and Canc Genome Atlas Res Network and Cancer Genome Atlas Research Network
Cell (Cambridge), ISSN 0092-8674, 2015, Volume 163, Issue 4, pp. 1011 - 1025
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 Agrawal, Nishant and Akbani, Rehan and Aksoy, B. Arman and Ally, Adrian and Arachchi, Harindra and Asa, Sylvia L and Auman, J. Todd and Balasundaram, Miruna and Balu, Saianand and Baylin, Stephen B and Behera, Madhusmita and Bernard, Brady and Beroukhim, Rameen and Bishop, Justin A and Black, Aaron D and Bodenheimer, Tom and Boice, Lori and Bootwalla, Moiz S and Bowen, Jay and Bowlby, Reanne and Bristow, Christopher A and Brookens, Robin and Brooks, Denise and Bryant, Robert and Buda, Elizabeth and Butterfield, Yaron S.N and Carling, Tobias and Carlsen, Rebecca and Carter, Scott L and Carty, Sally E and Chan, Timothy A and Chen, Amy Y and Cherniack, Andrew D and Cheung, Dorothy and Chin, Lynda and Cho, Juok and Chu, Andy and Chuah, Eric and Cibulskis, Kristian and Ciriello, Giovanni and Clarke, Amanda and Clayman, Gary L and Cope, Leslie and Copland, John A and Covington, Kyle and Danilova, Ludmila and Davidsen, Tanja and Demchok, John A and DiCara, Daniel and Dhalla, Noreen and Dhir, Rajiv and Dookran, Sheliann S and Dresdner, Gideon and Eldridge, Jonathan and Eley, Greg and El-Naggar, Adel K and Eng, Stephanie and Fagin, James A and Fennell, Timothy and Ferris, Robert L and Fisher, Sheila and Frazer, Scott and Frick, Jessica and Gabriel, Stacey B and Ganly, Ian and Gao, Jianjiong and Garraway, Levi A and Gastier-Foster, Julie M and Getz, Gad and Gehlenborg, Nils and Ghossein, Ronald and Gibbs, Richard A and Giordano, Thomas J and Gomez-Hernandez, Karen and Grimsby, Jonna and Gross, Benjamin and Guin, Ranabir and Hadjipanayis, Angela and Harper, Hollie A and Hayes, D. Neil and Heiman, David I and Herman, James G and Hoadley, Katherine A and Hofree, Matan and Holt, Robert A and Hoyle, Alan P and Huang, Franklin W and Huang, Mei and Hutter, Carolyn M and Ideker, Trey and Iype, Lisa and Jacobsen, Anders and Jefferys, Stuart R and Jones, Corbin D and Jones, Steven J.M and Kasaian, Katayoon and Kebebew, Electron and Khuri, Fadlo R and Kim, Jaegil and Kramer, Roger and ... and The Cancer Genome Atlas Research Network and Canc Genome Atlas Res Network and Cancer Genome Atlas Research Network
Cell (Cambridge), ISSN 0092-8674, 2014, Volume 159, Issue 3, pp. 676 - 690
Journal Article