Comprehensive and Integrative Genomic Characterization of Hepatocellular Carcinoma
Ally, Adrian; Balasundaram, Miruna; Carlsen, Rebecca; Chuah, Eric; Clarke, Amanda; Dhalla, Noreen; Holt, Robert A; Jones, Steven JM; Lee, Darlene; Ma, Yussanne; Marra, Marco A; Mayo, Michael; Moore, Richard A; Mungall, Andrew J; Schein, Jacqueline E; Sipahimalani, Payal; Tam, Angela; Thiessen, Nina; Cheung, Dorothy; Wong, Tina; Brooks, Denise; Robertson, AGordon; Bowlby, Reanne; Mungall, Karen; Sadeghi, Sara; Xi, Liu; Covington, Kyle; Shinbrot, Eve; Wheeler, David A; Gibbs, Richard A; Donehower, Lawrence A; Wang, Linghua; Bowen, Jay; Gastier-Foster, Julie M; Gerken, Mark; Helsel, Carmen; Leraas, Kristen M; Lichtenberg, Tara M; Ramirez, Nilsa C; Wise, Lisa; Zmuda, Erik; Gabriel, Stacey B; Meyerson, Matthew; Cibulskis, Carrie; Murray, Bradley A; Shih, Juliann; Beroukhim, Rameen; Cherniack, Andrew D; Schumacher, Steven E; Saksena, Gordon; Pedamallu, Chandra Sekhar; Chin, Lynda; Getz, Gad; Noble, Michael; Zhang, Hailei; Heiman, David; Cho, Juok; Gehlenborg, Nils; Saksena, Gordon; Voet, Douglas; Lin, Pei; Frazer, Scott; Defreitas, Timothy; Meier, Sam; Lawrence, Michael; Kim, Jaegil; Creighton, Chad J; Muzny, Donna; Doddapaneni, HarshaVardhan; Hu, Jianhong; Wang, Min; Morton, Donna; Korchina, Viktoriya; Han, Yi; Dinh, Huyen; Lewis, Lora; Bellair, Michelle; Liu, Xiuping; Santibanez, Jireh; Glenn, Robert; Lee, Sandra; Hale, Walker; Parker, Joel S; Wilkerson, Matthew D; Hayes, DNeil; Reynolds, Sheila M; Shmulevich, Ilya; Zhang, Wei; Liu, Yuexin; Iype, Lisa; Makhlouf, Hala; Torbenson, Michael S; Kakar, Sanjay; Yeh, Matthew M; Kleiner, David E; Jain, Dhanpat; Dhanasekaran, Renumathy; El-Serag, Hashem B; Yim, Sun Young; Weinstein, John N; Mishra, Lopa; Zhang, Jianping; Akbani, Rehan; Ling, Shiyun; Ju, Zhenlin; Su, Xiaoping; Hegde, Apurva M; Mills, Gordon B; Lu, Yiling; Chen, Jian; Lee, Ju-Seog; Sohn, Bo Hwa; Shim, Jae Jun; Tong, Pan; Aburatani, Hiroyuki; Yamamoto, Shogo; Tatsuno, Kenji; Li, Wei; Xia, Zheng; Stransky, Nicolas; Seiser, Eric; Innocenti, Federico; Gao, Jianjiong; Kundra, Ritika; Zhang, Hongxin; Heins, Zachary; Ochoa, Angelica; Sander, Chris; Ladanyi, Marc; Shen, Ronglai; Arora, Arshi; Sanchez-Vega, Francisco; Schultz, Nikolaus; Kasaian, Katayoon; Radenbaugh, Amie; Bissig, Karl-Dimiter; Moore, David D; Totoki, Yasushi; Nakamura, Hiromi; Shibata, Tatsuhiro; Yau, Christina; Graim, Kiley; Stuart, Josh; Haussler, David; Slagle, Betty L; Ojesina, Akinyemi I; Katsonis, Panagiotis; Koire, Amanda; Lichtarge, Olivier; Hsu, Teng-Kuei; Ferguson, Martin L; Demchok, John A; Felau, Ina; Sheth, Margi; Tarnuzzer, Roy; Wang, Zhining; Yang, Liming; Zenklusen, Jean C; Zhang, Jiashan; Hutter, Carolyn M; Sofia, Heidi J; Verhaak, Roel GW; Zheng, Siyuan; Lang, Frederick; Chudamani, Sudha; Liu, Jia; Lolla, Laxmi; Wu, Ye; Naresh, Rashi; Pihl, Todd; Sun, Charlie; Wan, Yunhu; Benz, Christopher; Perou, Amy H; Thorne, Leigh B; Boice, Lori; Huang, Mei; Rathmell, WKimryn; Noushmehr, Houtan; Saggioro, Fabiano Pinto; Tirapelli, Daniela Pretti da Cunha; Carlotti, Carlos Gilberto Junior; Mente, Enio David; Silva, Orlando de Castro, Jr; Trevisan, Felipe Amstalden; Kang, Koo Jeong; Ahn, Keun Soo; Giama, Nasra H; Moser, Catherine D; Giordano, Thomas J; Vinco, Michelle; Welling, Theodore H; Crain, Daniel; Curley, Erin; Gardner, Johanna; Mallery, David; Morris, Scott; Paulauskis, Joseph; Penny, Robert; Shelton, Candace; Shelton, Troy; Kelley, Robin K; Park, Joong-Won; Chandan, Vishal S; Roberts, Lewis R; Bathe, Oliver F; Hagedorn, Curt H; Auman, JTodd; O'Brien, Daniel R; Kocher, Jean-Pierre A; Jones, Corbin D; Mieczkowski, Piotr A; Perou, Charles M; Skelly, Tara; Tan, Donghui; Veluvolu, Umadevi; Balu, Saianand; Bodenheimer, Tom; Hoyle, Alan P; Jefferys, Stuart R; Meng, Shaowu; Mose, Lisle E; Shi, Yan; Simons, Janae V; Soloway, Matthew G; Roach, Jeffrey; Hoadley, Katherine A; Baylin, Stephen B; Shen, Hui; Hinoue, Toshinori; Bootwalla, Moiz S; Van den Berg, David J; Weisenberger, Daniel J; Lai, Phillip H; Holbrook, Andrea; Berrios, Mario; Laird, Peter W; Canc Genome Atlas Res Network
Liver cancer has the second highest worldwide cancer mortality rate and has limited therapeutic options. We analyzed 363 hepatocellular carcinoma (HCC) cases by whole-exome sequencing and DNA copy number analyses, and we analyzed 196 HCC cases by DNA methylation, RNA, miRNA, and proteomic expression also. DNA sequencing and mutation analysis identified significantly mutated genes, including LZTR1, EEF1A1, SF3B1, and SMARCA4. Significant alterations by mutation or downregulation by hypermethylation in genes likely to result in HCC metabolic reprogramming (ALB, APOB, and CPS1) were observed. Integrative molecular HCC subtyping incorporating unsupervised clustering of five data platforms identified three subtypes, one of which was associated with poorer prognosis in three HCC cohorts. Integrated analyses enabled development of a p53 target gene expression signature correlating with poor survival. Potential therapeutic targets for which inhibitors exist include WNT signaling, MDM4, MET, VEGFA, MCL1, IDH1, TERT, and immune checkpoint proteins CTLA-4, PD-1, and PD-L1.
ISI:000403332400020
ISSN: 1097-4172
CID: 2762962
Nivolumab in patients with advanced hepatocellular carcinoma (CheckMate 040): an open-label, non-comparative, phase 1/2 dose escalation and expansion trial
El-Khoueiry, Anthony B; Sangro, Bruno; Yau, Thomas; Crocenzi, Todd S; Kudo, Masatoshi; Hsu, Chiun; Kim, Tae-You; Choo, Su-Pin; Trojan, Jorg; Welling, Theodore H Rd; Meyer, Tim; Kang, Yoon-Koo; Yeo, Winnie; Chopra, Akhil; Anderson, Jeffrey; Dela Cruz, Christine; Lang, Lixin; Neely, Jaclyn; Tang, Hao; Dastani, Homa B; Melero, Ignacio
BACKGROUND: For patients with advanced hepatocellular carcinoma, sorafenib is the only approved drug worldwide, and outcomes remain poor. We aimed to assess the safety and efficacy of nivolumab, a programmed cell death protein-1 (PD-1) immune checkpoint inhibitor, in patients with advanced hepatocellular carcinoma with or without chronic viral hepatitis. METHODS: We did a phase 1/2, open-label, non-comparative, dose escalation and expansion trial (CheckMate 040) of nivolumab in adults (>/=18 years) with histologically confirmed advanced hepatocellular carcinoma with or without hepatitis C or B (HCV or HBV) infection. Previous sorafenib treatment was allowed. A dose-escalation phase was conducted at seven hospitals or academic centres in four countries or territories (USA, Spain, Hong Kong, and Singapore) and a dose-expansion phase was conducted at an additional 39 sites in 11 countries (Canada, UK, Germany, Italy, Japan, South Korea, Taiwan). At screening, eligible patients had Child-Pugh scores of 7 or less (Child-Pugh A or B7) for the dose-escalation phase and 6 or less (Child-Pugh A) for the dose-expansion phase, and an Eastern Cooperative Oncology Group performance status of 1 or less. Patients with HBV infection had to be receiving effective antiviral therapy (viral load <100 IU/mL); antiviral therapy was not required for patients with HCV infection. We excluded patients previously treated with an agent targeting T-cell costimulation or checkpoint pathways. Patients received intravenous nivolumab 0.1-10 mg/kg every 2 weeks in the dose-escalation phase (3+3 design). Nivolumab 3 mg/kg was given every 2 weeks in the dose-expansion phase to patients in four cohorts: sorafenib untreated or intolerant without viral hepatitis, sorafenib progressor without viral hepatitis, HCV infected, and HBV infected. Primary endpoints were safety and tolerability for the escalation phase and objective response rate (Response Evaluation Criteria In Solid Tumors version 1.1) for the expansion phase. This study is registered with ClinicalTrials.gov, number NCT01658878. FINDINGS: Between Nov 26, 2012, and Aug 8, 2016, 262 eligible patients were treated (48 patients in the dose-escalation phase and 214 in the dose-expansion phase). 202 (77%) of 262 patients have completed treatment and follow-up is ongoing. During dose escalation, nivolumab showed a manageable safety profile, including acceptable tolerability. In this phase, 46 (96%) of 48 patients discontinued treatment, 42 (88%) due to disease progression. Incidence of treatment-related adverse events did not seem to be associated with dose and no maximum tolerated dose was reached. 12 (25%) of 48 patients had grade 3/4 treatment-related adverse events. Three (6%) patients had treatment-related serious adverse events (pemphigoid, adrenal insufficiency, liver disorder). 30 (63%) of 48 patients in the dose-escalation phase died (not determined to be related to nivolumab therapy). Nivolumab 3 mg/kg was chosen for dose expansion. The objective response rate was 20% (95% CI 15-26) in patients treated with nivolumab 3 mg/kg in the dose-expansion phase and 15% (95% CI 6-28) in the dose-escalation phase. INTERPRETATION: Nivolumab had a manageable safety profile and no new signals were observed in patients with advanced hepatocellular carcinoma. Durable objective responses show the potential of nivolumab for treatment of advanced hepatocellular carcinoma. FUNDING: Bristol-Myers Squibb.
PMID: 28434648
ISSN: 1474-547x
CID: 2762952