Pan-cancer analysis of whole genomes

Campbell, P. J., Getz, G., Korbel, J. O., Stuart, J. M., Jennings, J. L., Stein, L. D., Perry, M. D., Nahal-Bose, H. K., Ouellette, B. F. F., Li, C. H., Rheinbay, E., Nielsen, G. P., Sgroi, D. C., Wu, C. L., Faquin, W. C., Deshpande, V., Boutros, P. C., Lazar, A. J., Hoadley, K. A., Louis, D. N., Dursi, L. J., Yung, C. K., Bailey, M. H., Saksena, G., Raine, K. M., Buchhalter, I., Kleinheinz, K., Schlesner, M., Zhang, J., Wang, W., Wheeler, D. A., Ding, L., Simpson, J. T., O’Connor, B. D., Yakneen, S., Ellrott, K., Miyoshi, N., Butler, A. P., Royo, R., Shorser, S. I., Vazquez, M., Rausch, T., Tiao, G., Waszak, S. M., Rodriguez-Martin, B., Shringarpure, S., Wu, D. Y., Demidov, G. M., Delaneau, O., Hayashi, S., Imoto, S., Habermann, N., Segre, A. V., Garrison, E., Cafferkey, A., Alvarez, E. G., Heredia-Genestar, J. M., Muyas, F., Drechsel, O., Bruzos, A. L., Temes, J., Zamora, J., Baez-Ortega, A., Kim, H. L., Mashl, R. J., Ye, K., DiBiase, A., Huang, K. L., Letunic, I., McLellan, M. D., Newhouse, S. J., Shmaya, T., Kumar, S., Wedge, D. C., Wright, M. H., Yellapantula, V. D., Gerstein, M., Khurana, E., Marques-Bonet, T., Navarro, A., Bustamante, C. D., Siebert, R., Nakagawa, H., Easton, D. F., Ossowski, S., Tubio, J. M. C., De La Vega, F. M., Estivill, X., Yuen, D., Mihaiescu, G. L., Omberg, L., Ferretti, V., Sabarinathan, R., Pich, O., Gonzalez-Perez, A., Taylor-Weiner, A., Fittall, M. W., Demeulemeester, J., Tarabichi, M., Roberts, N. D., Van Loo, P., Cortés-Ciriano, I., Urban, L., Park, P., Zhu, B., Pitkänen, E., Li, Y., Saini, N., Klimczak, L. J., Weischenfeldt, J., Sidiropoulos, N., Alexandrov, L. B., Rabionet, R., Escaramis, G., Bosio, M., Holik, A. Z., Susak, H., Prasad, A., Erkek, S., Calabrese, C., Raeder, B., Harrington, E., Mayes, S., Turner, D., Juul, S., Roberts, S. A., Song, L., Koster, R., Mirabello, L., Hua, X., Tanskanen, T. J., Tojo, M., Chen, J., Aaltonen, L. A., Rätsch, G., Schwarz, R. F., Butte, A. J., Brazma, A., Chanock, S. J., Chatterjee, N., Stegle, O., Harismendy, O., Bova, G. S., Gordenin, D. A., Haan, D., Sieverling, L., Feuerbach, L., Chalmers, D., Joly, Y., Knoppers, B., Molnár-Gábor, F., Phillips, M., Thorogood, A., Townend, D., Goldman, M., Fonseca, N. A., Xiang, Q., Craft, B., Piñeiro-Yáñez, E., Muñoz, A., Petryszak, R., Füllgrabe, A., Al-Shahrour, F., Keays, M., Haussler, D., Weinstein, J., Huber, W., Valencia, A., Papatheodorou, I., Zhu, J., Fan, Y., Torrents, D., Bieg, M., Chen, K., Chong, Z., Cibulskis, K., Eils, R., Fulton, R. S., Gelpi, J. L., Gonzalez, S., Gut, I. G., Hach, F., Heinold, M., Hu, T., Huang, V., Hutter, B., Jäger, N., Jung, J., Kumar, Y., Lalansingh, C., Leshchiner, I., Livitz, D., Ma, E. Z., Maruvka, Y. E., Milovanovic, A., Nielsen, M. M., Paramasivam, N., Pedersen, J. S., Puiggròs, M., Sahinalp, S. C., Sarrafi, I., Stewart, C., Stobbe, M. D., Wala, J. A., Wang, J., Wendl, M., Werner, J., Wu, Z., Xue, H., Yamaguchi, T. N., Yellapantula, V., Davis-Dusenbery, B. N., Grossman, R. L., Kim, Y., Heinold, M. C., Hinton, J., Jones, D. R., Menzies, A., Stebbings, L., Hess, J. M., Rosenberg, M., Dunford, A. J., Gupta, M., Imielinski, M., Meyerson, M., Beroukhim, R., Reimand, J., Dhingra, P., Favero, F., Dentro, S., Wintersinger, J., Rudneva, V., Park, J. W., Hong, E. P., Heo, S. G., Kahles, A., Lehmann, K. V., Soulette, C. M., Shiraishi, Y., Liu, F., He, Y., Demircioğlu, D., Davidson, N. R., Greger, L., Li, S., Liu, D., Stark, S. G., Zhang, F., Amin, S. B., Bailey, P., Chateigner, A., Frenkel-Morgenstern, M., Hou, Y., Huska, M. R., Kilpinen, H., Lamaze, F. C., Li, C., Li, X., Li, X., Liu, X., Marin, M. G., Markowski, J., Nandi, T., Ojesina, A. I., Pan-Hammarström, Q., Park, P. J., Pedamallu, C. S., Su, H., Tan, P., Teh, B. T., Wang, J., Xiong, H., Ye, C., Yung, C., Zhang, X., Zheng, L., Zhu, S., Awadalla, P., Creighton, C. J., Wu, K., Yang, H., Göke, J., Zhang, Z., Brooks, A. N., Fittall, M. W., Martincorena, I., Rubio-Perez, C., Juul, M., Schumacher, S., Shapira, O., Tamborero, D., Mularoni, L., Hornshøj, H., Deu-Pons, J., Muiños, F., Bertl, J., Guo, Q., Gonzalez-Perez, A., Xiang, Q., Bazant, W., Barrera, E., Al-Sedairy, S. T., Aretz, A., Bell, C., Betancourt, M., Buchholz, C., Calvo, F., Chomienne, C., Dunn, M., Edmonds, S., Green, E., Gupta, S., Hutter, C. M., Jegalian, K., Jones, N., Lu, Y., Nakagama, H., Nettekoven, G., Planko, L., Scott, D., Shibata, T., Shimizu, K., Stratton, M. R., Yugawa, T., Tortora, G., VijayRaghavan, K., Zenklusen, J. C., Townend, D., Knoppers, B. M., Aminou, B., Bartolome, J., Boroevich, K. A., Boyce, R., Buchanan, A., Byrne, N. J., Chen, Z., Cho, S., Choi, W., Clapham, P., Dow, M. T., Dursi, L. J., Eils, J., Farcas, C., Fayzullaev, N., Flicek, P., Heath, A. P., Hofmann, O., Hong, J. H., Hudson, T. J., Hübschmann, D., Ivkovic, S., Jeon, S. H., Jiao, W., Kabbe, R., Kahles, A., Kerssemakers, J. N. A., Kim, H., Kim, J., Koscher, M., Koures, A., Kovacevic, M., Lawerenz, C., Liu, J., Mijalkovic, S., Mijalkovic-Lazic, A. M., Miyano, S., Nastic, M., Nicholson, J., Ocana, D., Ohi, K., Ohno-Machado, L., Pihl, T. D., Prinz, M., Radovic, P., Short, C., Sofia, H. J., Spring, J., Struck, A. J., Tijanic, N., Vicente, D., Wang, Z., Williams, A., Woo, Y., Wright, A. J., Yang, L., Hamilton, M. P., Johnson, T. A., Kahraman, A., Kellis, M., Polak, P., Sallari, R., Sinnott-Armstrong, N., von Mering, C., Beltran, S., Gerhard, D. S., Gut, M., Trotta, J. R., Whalley, J. P., Niu, B., Espiritu, S. M. G., Gao, S., Huang, Y., Lalansingh, C. M., Teague, J. W., Wendl, M. C., Abascal, F., Bader, G. D., Bandopadhayay, P., Barenboim, J., Brunak, S., Carlevaro-Fita, J., Chakravarty, D., Chan, C. W. Y., Choi, J. K., Diamanti, K., Fink, J. L., Frigola, J., Gambacorti-Passerini, C., Garsed, D. W., Haradhvala, N. J., Harmanci, A. O., Helmy, M., Herrmann, C., Hobolth, A., Hodzic, E., Hong, C., Isaev, K., Izarzugaza, J. M. G., Johnson, R., Juul, R. I., Kim, J., Kim, J. K., Jan, Komorowski, Lanzós, A., Larsson, E., Lee, D., Li, S., Li, X., Lin, Z., Liu, E. M., Lochovsky, L., Lou, S., Madsen, T., Marchal, K., Martinez-Fundichely, A., McGillivray, P. D., Meyerson, W., Paczkowska, M., Park, K., Park, K., Pons, T., Pulido-Tamayo, S., Reyes-Salazar, I., Reyna, M. A., Rubin, M. A., Salichos, L., Sander, C., Schumacher, S. E., Shackleton, M., Shen, C., Shrestha, R., Shuai, S., Tsunoda, T., Umer, H. M., Uusküla-Reimand, L., Verbeke, L. P. C., Wadelius, C., Wadi, L., Warrell, J., Wu, G., Yu, J., Zhang, J., Zhang, X., Zhang, Y., Zhao, Z., Zou, L., Lawrence, M. S., Raphael, B. J., Bailey, P. J., Craft, D., Goldman, M. J., Aburatani, H., Binder, H., Dinh, H. Q., Heath, S. C., Hoffmann, S., Imbusch, C. D., Kretzmer, H., Laird, P. W., Martin-Subero, J. I., Nagae, G., Shen, H., Wang, Q., Weichenhan, D., Zhou, W., Berman, B. P., Brors, B., Plass, C., Akdemir, K. C., Bowtell, D. D. L., Burns, K. H., Busanovich, J., Chan, K., Dueso-Barroso, A., Edwards, P. A., Etemadmoghadam, D., Haber, J. E., Jones, D. T. W., Ju, Y. S., Kazanov, M. D., Koh, Y., Kumar, K., Lee, E. A., Lee, J. J. K., Lynch, A. G., Macintyre, G., Markowetz, F., Navarro, F. C. P., Pearson, J. V., Rippe, K., Scully, R., Villasante, I., Waddell, N., Yang, L., Yao, X., Yoon, S. S., Zhang, C. Z., Bergstrom, E. N., Boot, A., Covington, K., Fujimoto, A., Huang, M. N., Islam, S. M. A., McPherson, J. R., Morganella, S., Mustonen, V., Ng, A. W. T., Prokopec, S. D., Vázquez-García, I., Wu, Y., Yousif, F., Yu, W., Rozen, S. G., Rudneva, V. A., Shringarpure, S. S., Turner, D. J., Xia, T., Atwal, G., Chang, D. K., Cooke, S. L., Faltas, B. M., Haider, S., Kaiser, V. B., Karlić, R., Kato, M., Kübler, K., Margolin, A., Martin, S., Nik-Zainal, S., P’ng, C., Semple, C. A., Smith, J., Sun, R. X., Thai, K., Wright, D. W., Yuan, K., Biankin, A. V., Garraway, L., Grimmond, S. M., Adams, D. J., Anur, P., Cao, S., Christie, E. L., Cmero, M., Cun, Y., Dawson, K. J., Dentro, S. C., Deshwar, A. G., Donmez, N., Drews, R. M., Gerstung, M., Ha, G., Haase, K., Jerman, L., Ji, Y., Jolly, C., Lee, J., Lee-Six, H., Malikic, S., Mitchell, T. J., Morris, Q. D., Oesper, L., Peifer, M., Peto, M., Rosebrock, D., Rubanova, Y., Salcedo, A., Sengupta, S., Shi, R., Shin, S. J., Spiro, O., Vembu, S., Wintersinger, J. A., Yang, T. P., Yu, K., Zhu, H., Spellman, P. T., Weinstein, J. N., Chen, Y., Fujita, M., Han, L., Hasegawa, T., Komura, M., Li, J., Mizuno, S., Shimizu, E., Wang, Y., Xu, Y., Yamaguchi, R., Yang, F., Yang, Y., Yoon, C. J., Yuan, Y., Liang, H., Alawi, M., Borozan, I., Brewer, D. S., Cooper, C. S., Desai, N., Grundhoff, A., Iskar, M., Su, X., Zapatka, M., Lichter, P., Alsop, K., Bruxner, T. J. C., Christ, A. N., Cordner, S. M., Cowin, P. A., Drapkin, R., Fereday, S., George, J., Hamilton, A., Holmes, O., Hung, J. A., Kassahn, K. S., Kazakoff, S. H., Kennedy, C. J., Leonard, C. R., Mileshkin, L., Miller, D. K., Arnau, G. M., Mitchell, C., Newell, F., Nones, K., Patch, A. M., Quinn, M. C., Taylor, D. F., Thorne, H., Traficante, N., Vedururu, R., Waddell, N. M., Waring, P. M., Wood, S., Xu, Q., deFazio, A., Anderson, M. J., Antonello, D., Barbour, A. P., Bassi, C., Bersani, S., Cataldo, I., Chantrill, L. A., Chiew, Y. E., Chou, A., Cingarlini, S., Cloonan, N., Corbo, V., Davi, M. V., Duthie, F. R., Gill, A. J., Graham, J. S., Harliwong, I., Jamieson, N. B., Johns, A. L., Kench, J. G., Landoni, L., Lawlor, R. T., Mafficini, A., Merrett, N. D., Miotto, M., Musgrove, E. A., Nagrial, A. M., Oien, K. A., Pajic, M., Pinese, M., Robertson, A. J., Rooman, I., Rusev, B. C., Samra, J. S., Scardoni, M., Scarlett, C. J., Scarpa, A., Sereni, E., Sikora, K. O., Simbolo, M., Taschuk, M. L., Toon, C. W., Vicentini, C., Wu, J., Zeps, N., Behren, A., Burke, H., Cebon, J., Dagg, R. A., De Paoli-Iseppi, R., Dutton-Regester, K., Field, M. A., Fitzgerald, A., Hersey, P., Jakrot, V., Johansson, P. A., Kakavand, H., Kefford, R. F., Lau, L. M. S., Long, G. V., Pickett, H. A., Pritchard, A. L., Pupo, G. M., Saw, R. P. M., Schramm, S. J., Shang, C. A., Shang, P., Spillane, A. J., Stretch, J. R., Tembe, V., Thompson, J. F., Vilain, R. E., Wilmott, J. S., Yang, J. Y., Hayward, N. K., Mann, G. J., Scolyer, R. A., Bartlett, J., Bavi, P., Chadwick, D. E., Chan-Seng-Yue, M., Cleary, S., Connor, A. A., Czajka, K., Denroche, R. E., Dhani, N. C., Eagles, J., Gallinger, S., Grant, R. C., Hedley, D., Hollingsworth, M. A., Jang, G. H., Johns, J., Kalimuthu, S., Liang, S. B., Lungu, I., Luo, X., Mbabaali, F., McPherson, T. A., Miller, J. K., Moore, M. J., Notta, F., Pasternack, D., Petersen, G. M., Roehrl, M. H. A., Sam, M., Selander, I., Serra, S., Shahabi, S., Thayer, S. P., Timms, L. E., Wilson, G. W., Wilson, J. M., Wouters, B. G., McPherson, J. D., Beck, T. A., Bhandari, V., Collins, C. C., Fleshner, N. E., Fox, N. S., Fraser, M., Heisler, L. E., Lalonde, E., Livingstone, J., Meng, A., Sabelnykova, V. Y., Shiah, Y. J., Van der Kwast, T., Bristow, R. G., Ding, S., Fan, D., Li, L., Nie, Y., Xiao, X., Xing, R., Yang, S., Yu, Y., Zhou, Y., Banks, R. E., Bourque, G., Brennan, P., Letourneau, L., Riazalhosseini, Y., Scelo, G., Vasudev, N., Viksna, J., Lathrop, M., Tost, J., Ahn, S. M., Aparicio, S., Arnould, L., Aure, M. R., Bhosle, S. G., Birney, E., Borg, A., Boyault, S., Brinkman, A. B., Brock, J. E., Broeks, A., Børresen-Dale, A. L., Caldas, C., Chin, S. F., Davies, H., Desmedt, C., Dirix, L., Dronov, S., Ehinger, A., Eyfjord, J. E., Fatima, A., Foekens, J. A., Futreal, P. A., Garred, Ø, Giri, D. D., Glodzik, D., Grabau, D., Hilmarsdottir, H., Hooijer, G. K., Jacquemier, J., Jang, S. J., Jonasson, J. G., Jonkers, J., Kim, H. Y., King, T. A., Knappskog, S., Kong, G., Krishnamurthy, S., Lakhani, S. R., Langerød, A., Larsimont, D., Lee, H. J., Lee, J. Y., Lee, M. T. M., Lingjærde, O. C., MacGrogan, G., Martens, J. W. M., O’Meara, S., Pauporté, I., Pinder, S., Pivot, X., Provenzano, E., Purdie, C. A., Ramakrishna, M., Ramakrishnan, K., Reis-Filho, J., Richardson, A. L., Ringnér, M., Rodriguez, J. B., Rodríguez-González, F. G., Romieu, G., Salgado, R., Sauer, T., Shepherd, R., Sieuwerts, A. M., Simpson, P. T., Smid, M., Sotiriou, C., Span, P. N., Stefánsson, Ó A., Stenhouse, A., Stunnenberg, H. G., Sweep, F., Tan, B. K. T., Thomas, G., Thompson, A. M., Tommasi, S., Treilleux, I., Tutt, A., Ueno, N. T., Van Laere, S., Van den Eynden, G. G., Vermeulen, P., Viari, A., Vincent-Salomon, A., Wong, B. H., Yates, L., Zou, X., van Deurzen, C. H. M., van de Vijver, M. J., van’t Veer, L., Ammerpohl, O., Aukema, S., Bergmann, A. K., Bernhart, S. H., Borkhardt, A., Borst, C., Burkhardt, B., Claviez, A., Goebler, M. E., Haake, A., Haas, S., Hansmann, M., Hoell, J. I., Hummel, M., Karsch, D., Klapper, W., Kneba, M., Kreuz, M., Kube, D., Küppers, R., Lenze, D., Loeffler, M., López, C., Mantovani-Löffler, L., Möller, P., Ott, G., Radlwimmer, B., Richter, J., Rohde, M., Rosenstiel, P. C., Rosenwald, A., Schilhabel, M. B., Schreiber, S., Stadler, P. F., Staib, P., Stilgenbauer, S., Sungalee, S., Szczepanowski, M., Toprak, U. H., Trümper, L. H. P., Wagener, R., Zenz, T., Hovestadt, V., von Kalle, C., Kool, M., Korshunov, A., Landgraf, P., Lehrach, H., Northcott, P. A., Pfister, S. M., Reifenberger, G., Warnatz, H. J., Wolf, S., Yaspo, M. L., Assenov, Y., Gerhauser, C., Minner, S., Schlomm, T., Simon, R., Sauter, G., Sültmann, H., Biswas, N. K., Maitra, A., Majumder, P. P., Sarin, R., Barbi, S., Bonizzato, G., Cantù, C., Dei Tos, A. P., Fassan, M., Grimaldi, S., Luchini, C., Malleo, G., Marchegiani, G., Milella, M., Paiella, S., Pea, A., Pederzoli, P., Ruzzenente, A., Salvia, R., Sperandio, N., Arai, Y., Hama, N., Hiraoka, N., Hosoda, F., Nakamura, H., Ojima, H., Okusaka, T., Totoki, Y., Urushidate, T., Fukayama, M., Ishikawa, S., Katai, H., Katoh, H., Komura, D., Rokutan, H., Saito-Adachi, M., Suzuki, A., Taniguchi, H., Tatsuno, K., Ushiku, T., Yachida, S., Yamamoto, S., Aikata, H., Arihiro, K., Ariizumi, S. I., Chayama, K., Furuta, M., Gotoh, K., Hayami, S., Hirano, S., Kawakami, Y., Maejima, K., Nakamura, T., Nakano, K., Ohdan, H., Sasaki-Oku, A., Tanaka, H., Ueno, M., Yamamoto, M., Yamaue, H., Choo, S. P., Cutcutache, I., Khuntikeo, N., Ong, C. K., Pairojkul, C., Popescu, I., Ahn, K. S., Aymerich, M., Lopez-Guillermo, A., López-Otín, C., Puente, X. S., Campo, E., Amary, F., Baumhoer, D., Behjati, S., Bjerkehagen, B., Futreal, P. A., Myklebost, O., Pillay, N., Tarpey, P., Tirabosco, R., Zaikova, O., Flanagan, A. M., Boultwood, J., Bowen, D. T., Cazzola, M., Green, A. R., Hellstrom-Lindberg, E., Malcovati, L., Nangalia, J., Papaemmanuil, E., Vyas, P., Ang, Y., Barr, H., Beardsmore, D., Eldridge, M., Gossage, J., Grehan, N., Hanna, G. B., Hayes, S. J., Hupp, T. R., Khoo, D., Lagergren, J., Lovat, L. B., MacRae, S., O’Donovan, M., O’Neill, J. R., Parsons, S. L., Preston, S. R., Puig, S., Roques, T., Sanders, G., Sothi, S., Tavaré, S., Tucker, O., Turkington, R., Underwood, T. J., Welch, I., Fitzgerald, R. C., Berney, D. M., De Bono, J. S., Cahill, D., Camacho, N., Dennis, N. M., Dudderidge, T., Edwards, S. E., Fisher, C., Foster, C. S., Ghori, M., Gill, P., Gnanapragasam, V. J., Gundem, G., Hamdy, F. C., Hawkins, S., Hazell, S., Howat, W., Isaacs, W. B., Karaszi, K., Kay, J. D., Khoo, V., Kote-Jarai, Z., Kremeyer, B., Kumar, P., Lambert, A., Leongamornlert, D. A., Livni, N., Lu, Y. J., Luxton, H. J., Marsden, L., Massie, C. E., Matthews, L., Mayer, E., McDermott, U., Merson, S., Neal, D. E., Ng, A., Nicol, D., Ogden, C., Rowe, E. W., Shah, N. C., Thomas, S., Thompson, A., Verrill, C., Visakorpi, T., Warren, A. Y., Whitaker, H. C., Zhang, H., van As, N., Eeles, R. A., Abeshouse, A., Agrawal, N., Akbani, R., Al-Ahmadie, H., Albert, M., Aldape, K., Ally, A., Appelbaum, E. L., Armenia, J., Asa, S., Auman, J. T., Balasundaram, M., Balu, S., Barnholtz-Sloan, J., Bathe, O. F., Baylin, S. B., Benz, C., Berchuck, A., Berrios, M., Bigner, D., Birrer, M., Bodenheimer, T., Boice, L., Bootwalla, M. S., Bosenberg, M., Bowlby, R., Boyd, J., Broaddus, R. R., Brock, M., Brooks, D., Bullman, S., Caesar-Johnson, S. J., Carey, T. E., Carlsen, R., Cerfolio, R., Chandan, V. S., Chen, H. W., Cherniack, A. D., Chien, J., Cho, J., Chuah, E., Cibulskis, C., Cope, L., Cordes, M. G., Curley, E., Czerniak, B., Danilova, L., Davis, I. J., Defreitas, T., Demchok, J. A., Dhalla, N., Dhir, R., Doddapaneni, H. V., El-Naggar, A., Felau, I., Ferguson, M. L., Finocchiaro, G., Fong, K. M., Frazer, S., Friedman, W., Fronick, C. C., Fulton, L. A., Gabriel, S. B., Gao, J., Gehlenborg, N., Gershenwald, J. E., Ghossein, R., Giama, N. H., Gibbs, R. A., Gomez, C., Govindan, R., Hayes, D. N., Hegde, A. M., Heiman, D. I., Heins, Z., Hepperla, A. J., Holbrook, A., Holt, R. A., Hoyle, A. P., Hruban, R. H., Hu, J., Huang, M., Huntsman, D., Huse, J., Iacobuzio-Donahue, C. A., Ittmann, M., Jayaseelan, J. C., Jefferys, S. R., Jones, C. D., Jones, S. J. M., Juhl, H., Kang, K. J., Karlan, B., Kasaian, K., Kebebew, E., Kim, H. K., Korchina, V., Kundra, R., Lai, P. H., Lander, E., Le, X., Lee, D., Levine, D. A., Lewis, L., Ley, T., Li, H. I., Lin, P., Linehan, W. M., Liu, F. F., Lu, Y., Lype, L., Ma, Y., Maglinte, D. T., Mardis, E. R., Marks, J., Marra, M. A., Matthew, T. J., Mayo, M., McCune, K., Meier, S. R., Meng, S., Mieczkowski, P. A., Mikkelsen, T., Miller, C. A., Mills, G. B., Moore, R. A., Morrison, C., Mose, L. E., Moser, C. D., Mungall, A. J., Mungall, K., Mutch, D., Muzny, D. M., Myers, J., Newton, Y., Noble, M. S., O’Donnell, P., O’Neill, B. P., Ochoa, A., Park, J. W., Parker, J. S., Pass, H., Pastore, A., Pennell, N. A., Perou, C. M., Petrelli, N., Potapova, O., Rader, J. S., Ramalingam, S., Rathmell, W. K., Reuter, V., Reynolds, S. M., Ringel, M., Roach, J., Roberts, L. R., Robertson, A. G., Sadeghi, S., Saller, C., Sanchez-Vega, F., Schadendorf, D., Schein, J. E., Schmidt, H. K., Schultz, N., Seethala, R., Senbabaoglu, Y., Shelton, T., Shi, Y., Shih, J., Shmulevich, I., Shriver, C., Signoretti, S., Simons, J. V., Singer, S., Sipahimalani, P., Skelly, T. J., Smith-McCune, K., Socci, N. D., Soloway, M. G., Sood, A. K., Tam, A., Tan, D., Tarnuzzer, R., Thiessen, N., Thompson, R. H., Thorne, L. B., Tsao, M., Umbricht, C., Van Den Berg, D. J., Van Meir, E. G., Veluvolu, U., Voet, D., Wang, L., Weinberger, P., Weisenberger, D. J., Wigle, D., Wilkerson, M. D., Wilson, R. K., Winterhoff, B., Wiznerowicz, M., Wong, T., Wong, W., Xi, L., Yau, C., Zhang, H., Zhang, H., Zhang, J., The, Icgc Tcga Pan-Cancer Analysis of Whole Genomes Consortium (2020) Pan-cancer analysis of whole genomes. Nature, 578 (7793). pp. 82-93. ISSN 0028-0836 (Public Dataset)

Abstract

Cancer is driven by genetic change, and the advent of massively parallel sequencing has enabled systematic documentation of this variation at the whole-genome scale1–3. Here we report the integrative analysis of 2,658 whole-cancer genomes and their matching normal tissues across 38 tumour types from the Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium of the International Cancer Genome Consortium (ICGC) and The Cancer Genome Atlas (TCGA). We describe the generation of the PCAWG resource, facilitated by international data sharing using compute clouds. On average, cancer genomes contained 4–5 driver mutations when combining coding and non-coding genomic elements; however, in around 5% of cases no drivers were identified, suggesting that cancer driver discovery is not yet complete. Chromothripsis, in which many clustered structural variants arise in a single catastrophic event, is frequently an early event in tumour evolution; in acral melanoma, for example, these events precede most somatic point mutations and affect several cancer-associated genes simultaneously. Cancers with abnormal telomere maintenance often originate from tissues with low replicative activity and show several mechanisms of preventing telomere attrition to critical levels. Common and rare germline variants affect patterns of somatic mutation, including point mutations, structural variants and somatic retrotransposition. A collection of papers from the PCAWG Consortium describes non-coding mutations that drive cancer beyond those in the TERT promoter4; identifies new signatures of mutational processes that cause base substitutions, small insertions and deletions and structural variation5,6; analyses timings and patterns of tumour evolution7; describes the diverse transcriptional consequences of somatic mutation on splicing, expression levels, fusion genes and promoter activity8,9; and evaluates a range of more-specialized features of cancer genomes8,10–18. © 2020, The Author(s).

Item Type: Paper
Subjects: bioinformatics
diseases & disorders > cancer
bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification
diseases & disorders
bioinformatics > genomics and proteomics > genetics & nucleic acid processing
bioinformatics > genomics and proteomics
Investigative techniques and equipment
diseases & disorders > neoplasms
organs, tissues, organelles, cell types and functions > cell types and functions > cell functions
organs, tissues, organelles, cell types and functions > cell types and functions > cell functions > cell proliferation
organs, tissues, organelles, cell types and functions > cell types and functions
bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification > mutations
organs, tissues, organelles, cell types and functions
organs, tissues, organelles, cell types and functions > cell types and functions > cell functions > senescence
bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification > telomeres
Investigative techniques and equipment > assays > whole genome sequencing
CSHL Authors:
Communities: CSHL labs > Boyd lab
Depositing User: Adrian Gomez
Date: 2020
Date Deposited: 13 Mar 2020 18:32
Last Modified: 29 Jan 2024 20:36
PMCID: PMC7025898
Related URLs:
Dataset ID:
  • Code: https://dockstore.org/organizations/PCAWG/collections/PCAWG
  • Data: http://dcc.icgc.org/pcawg/
  • Data: https://www.synapse.org/
URI: https://repository.cshl.edu/id/eprint/39207

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