Comprehensive and Integrated Genomic Characterization of Adult Soft Tissue Sarcomas
- Network, The Cancer Genome Atlas Research;
- Abeshouse, Adam;
- Adebamowo, Clement;
- Adebamowo, Sally N;
- Akbani, Rehan;
- Akeredolu, Teniola;
- Ally, Adrian;
- Anderson, Matthew L;
- Anur, Pavana;
- Appelbaum, Elizabeth L;
- Armenia, Joshua;
- Auman, J Todd;
- Bailey, Matthew H;
- Baker, Laurence;
- Balasundaram, Miruna;
- Balu, Saianand;
- Barthel, Floris P;
- Bartlett, John;
- Baylin, Stephen B;
- Behera, Madhusmita;
- Belyaev, Dmitry;
- Bennett, Joesph;
- Benz, Christopher;
- Beroukhim, Rameen;
- Birrer, Michael;
- Bocklage, Thèrése;
- Bodenheimer, Tom;
- Boice, Lori;
- Bootwalla, Moiz S;
- Bowen, Jay;
- Bowlby, Reanne;
- Boyd, Jeff;
- Brohl, Andrew S;
- Brooks, Denise;
- Byers, Lauren;
- Carlsen, Rebecca;
- Castro, Patricia;
- Chen, Hsiao-Wei;
- Cherniack, Andrew D;
- Chibon, Fréderic;
- Chin, Lynda;
- Cho, Juok;
- Chuah, Eric;
- Chudamani, Sudha;
- Cibulskis, Carrie;
- Cooper, Lee AD;
- Cope, Leslie;
- Cordes, Matthew G;
- Crain, Daniel;
- Curley, Erin;
- Danilova, Ludmila;
- Dao, Fanny;
- Davis, Ian J;
- Davis, Lara E;
- Defreitas, Timothy;
- Delman, Keith;
- Demchok, John A;
- Demetri, George D;
- Demicco, Elizabeth G;
- Dhalla, Noreen;
- Diao, Lixia;
- Ding, Li;
- DiSaia, Phil;
- Dottino, Peter;
- Doyle, Leona A;
- Drill, Esther;
- Dubina, Michael;
- Eschbacher, Jennifer;
- Fedosenko, Konstantin;
- Felau, Ina;
- Ferguson, Martin L;
- Frazer, Scott;
- Fronick, Catrina C;
- Fulidou, Victoria;
- Fulton, Lucinda A;
- Fulton, Robert S;
- Gabriel, Stacey B;
- Gao, Jianjiong;
- Gao, Qingsong;
- Gardner, Johanna;
- Gastier-Foster, Julie M;
- Gay, Carl M;
- Gehlenborg, Nils;
- Gerken, Mark;
- Getz, Gad;
- Godwin, Andrew K;
- Godwin, Eryn M;
- Gordienko, Elena;
- Grilley-Olson, Juneko E;
- Gutman, David A;
- Gutmann, David H;
- Hayes, D Neil;
- Hegde, Apurva M;
- Heiman, David I;
- Heins, Zachary;
- Helsel, Carmen;
- Hepperla, Austin J;
- Higgins, Kelly;
- Hoadley, Katherine A;
- Hobensack, Shital;
- Holt, Robert A;
- Hoon, Dave B;
- Hornick, Jason L;
- Hoyle, Alan P;
- Hu, Xin;
- Huang, Mei;
- Hutter, Carolyn M;
- Iacocca, Mary;
- Ingram, Davis R;
- Ittmann, Michael;
- Iype, Lisa;
- Jefferys, Stuart R;
- Jones, Kevin B;
- Jones, Corbin D;
- Jones, Steven JM;
- Kalir, Tamara;
- Karlan, Beth Y;
- Karseladze, Apollon;
- Kasaian, Katayoon;
- Kim, Jaegil;
- Kundra, Ritika;
- Kuo, Hanluen;
- Ladanyi, Marc;
- Lai, Phillip H;
- Laird, Peter W;
- Larsson, Erik;
- Lawrence, Michael S;
- Lazar, Alexander J;
- Lee, Sanghoon;
- Lee, Darlene;
- Lehmann, Kjong-Van;
- Leraas, Kristen M;
- Lester, Jenny;
- Levine, Douglas A;
- Li, Irene;
- Lichtenberg, Tara M;
- Lin, Pei;
- Liu, Jia;
- Liu, Wenbin;
- Liu, Eric Minwei;
- Lolla, Laxmi;
- Lu, Yiling;
- Ma, Yussanne;
- Madan, Rashna;
- Maglinte, Dennis T;
- Magliocco, Anthony;
- Maki, Robert G;
- Mallery, David;
- Manikhas, Georgy;
- Mardis, Elaine R;
- Mariamidze, Armaz;
- Marra, Marco A;
- Martignetti, John A;
- Martinez, Cathleen;
- Mayo, Michael;
- McLellan, Michael D;
- Meier, Sam;
- Meng, Shaowu;
- Meyerson, Matthew;
- Mieczkowski, Piotr A;
- Miller, Christopher A;
- Mills, Gordon B;
- Moore, Richard A;
- Morris, Scott;
- Mose, Lisle E;
- Mozgovoy, Evgeny;
- Mungall, Andrew J;
- Mungall, Karen;
- Nalisnik, Michael;
- Naresh, Rashi;
- Newton, Yulia;
- Noble, Michael S;
- Novak, Janet E;
- Ochoa, Angelica;
- Olvera, Narciso;
- Owonikoko, Taofeek K;
- Paklina, Oxana;
- Parfitt, Jeremy;
- Parker, Joel S;
- Pastore, Alessandro;
- Paulauskis, Joseph;
- Penny, Robert;
- Pereira, Elena;
- Perou, Charles M;
- Perou, Amy H;
- Pihl, Todd;
- Pollock, Raphael E;
- Potapova, Olga;
- Radenbaugh, Amie J;
- Ramalingam, Suresh S;
- Ramirez, Nilsa C;
- Rathmell, W Kimryn;
- Raut, Chandrajit P;
- Riedel, Richard F;
- Reilly, Colleen;
- Reynolds, Sheila M;
- Roach, Jeffrey;
- Robertson, A Gordon;
- Roszik, Jason;
- Rubin, Brian P;
- Sadeghi, Sara;
- Saksena, Gordon;
- Salner, Andrew;
- Sanchez-Vega, Francisco;
- Sander, Chris;
- Schein, Jacqueline E;
- Schmidt, Heather K;
- Schultz, Nikolaus;
- Schumacher, Steven E;
- Sekhon, Harman;
- Senbabaoglu, Yasin;
- Setdikova, Galiya;
- Shelton, Candace;
- Shelton, Troy;
- Shen, Ronglai;
- Shi, Yan;
- Shih, Juliann;
- Shmulevich, Ilya;
- Sica, Gabriel L;
- Simons, Janae V;
- Singer, Samuel;
- Sipahimalani, Payal;
- Skelly, Tara;
- Socci, Nicholas;
- Sofia, Heidi J;
- Soloway, Matthew G;
- Spellman, Paul;
- Sun, Qiang;
- Swanson, Patricia;
- Tam, Angela;
- Tan, Donghui;
- Tarnuzzer, Roy;
- Thiessen, Nina;
- Thompson, Eric;
- Thorne, Leigh B;
- Tong, Pan;
- Torres, Keila E;
- van de Rijn, Matt;
- Van Den Berg, David J;
- Van Tine, Brian A;
- Veluvolu, Umadevi;
- Verhaak, Roel;
- Voet, Doug;
- Voronina, Olga;
- Wan, Yunhu;
- Wang, Zhining;
- Wang, Jing;
- Weinstein, John N;
- Weisenberger, Daniel J;
- Wilkerson, Matthew D;
- Wilson, Richard K;
- Wise, Lisa;
- Wong, Tina;
- Wong, Winghing;
- Wrangle, John;
- Wu, Ye;
- Wyczalkowski, Matthew;
- Yang, Liming;
- Yau, Christina;
- Yellapantula, Venkata;
- Zenklusen, Jean C;
- Zhang, Jiashan;
- Zhang, Hailei;
- Zhang, Hongxin;
- Zmuda, Erik
- et al.
Published Web Location
https://ac.els-cdn.com/S0092867417312035/1-s2.0-S0092867417312035-main.pdf?_tid=dbdc5b2c-ce2b-11e7-aba7-00000aacb360&acdnat=1511207522_2c3844f2d0cede590641e6002de15911Abstract
Sarcomas are a broad family of mesenchymal malignancies exhibiting remarkable histologic diversity. We describe the multi-platform molecular landscape of 206 adult soft tissue sarcomas representing 6 major types. Along with novel insights into the biology of individual sarcoma types, we report three overarching findings: (1) unlike most epithelial malignancies, these sarcomas (excepting synovial sarcoma) are characterized predominantly by copy-number changes, with low mutational loads and only a few genes (TP53, ATRX, RB1) highly recurrently mutated across sarcoma types; (2) within sarcoma types, genomic and regulomic diversity of driver pathways defines molecular subtypes associated with patient outcome; and (3) the immune microenvironment, inferred from DNA methylation and mRNA profiles, associates with outcome and may inform clinical trials of immune checkpoint inhibitors. Overall, this large-scale analysis reveals previously unappreciated sarcoma-type-specific changes in copy number, methylation, RNA, and protein, providing insights into refining sarcoma therapy and relationships to other cancer types.
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