Comprehensive genomic characterization defines human glioblastoma genes and core pathways

Chin, L; Meyerson, M; Aldape, K; Bigner, D; Mikkelsen, T; VandenBerg, S; Kahn, A; Penny, R; Ferguson, ML; Gerhard, DS; Getz, G; Brennan, C; Taylor, BS; Winckler, W; Park, P; Ladanyi, M; Hoadley, KA; Verhaak, RGW; Hayes, DN; Spellman, PT; Absher, D; Weir, BA; Ding, L; Wheeler, D; Lawrence, MS; Cibulskis, K; Mardis, E; Zhang, JH; Wilson, RK; Donehower, L; Wheeler, DA; Purdom, E; Wallis, J; Laird, PW; Herman, JG; Schuebel, KE; Weisenberger, DJ; Baylin, SB; Schultz, N; Yao, J; Wiedemeyer, R; Weinstein, J; Sander, C; Gibbs, RA; Gray, J; Kucherlapati, R; Lander, ES; Myers, RM; Perou, CM; McLendon, R; Friedman, A; Van Meir, EG; Brat, DJ; Mastrogianakis, GM; Olson, JJ; Lehman, N; Yung, WKA; Bogler, O; Berger, M; Prados, M; Muzny, D; Morgan, M; Scherer, S; Sabo, A; Nazareth, L; Lewis, L; Hall, O; Zhu, YM; Ren, YR; Alvi, O; Yao, JQ; Hawes, A; Jhangiani, S; Fowler, G; San Lucas, A; Kovar, C; Cree, A; Dinh, H; Santibanez, J; Joshi, V; Gonzalez-Garay, ML; Miller, CA; Milosavljevic, A; Sougnez, C; Fennell, T; Mahan, S; Wilkinson, J; Ziaugra, L; Onofrio, R; Bloom, T; Nicol, R; Ardlie, K; Baldwin, J; Gabriel, S; Fulton, RS; McLellan, MD; Larson, DE; Shi, XQ; Abbott, R; Fulton, L; Chen, K; Koboldt, DC; Wendl, MC; Meyer, R; Tang, YZ; Lin, L; Osborne, JR; Dunford-Shore, BH; Miner, TL; Delehaunty, K; Markovic, C; Swift, G; Courtney, W; Pohl, C; Abbott, S; Hawkins, A; Leong, S; Haipek, C; Schmidt, H; Wiechert, M; Vickery, T; Scott, S; Dooling, DJ; Chinwalla, A; Weinstock, GM; O&#39;Kelly, M; Robinson, J; Alexe, G; Beroukhim, R; Carter, S; Chiang, D; Gould, J; Gupta, S; Korn, J; Mermel, C; Mesirov, J; Monti, S; Nguyen, H; Parkin, M; Reich, M; Stransky, N; Garraway, L; Golub, T; Protopopov, A; Perna, I; Aronson, S; Sathiamoorthy, N; Ren, G; Kim, H; Kong, SK; Xiao, YH; Kohane, IS; Seidman, J; Cope, L; Pan, F; Van Den Berg, D; Van Neste, L; Yi, JM; Li, JZ; Southwick, A; Brady, S; Aggarwal, A; Chung, T; Sherlock, G; Brooks, JD; Jakkula, LR; Lapuk, AV; Marr, H; Dorton, S; Choi, YG; Han, J; Ray, A; Wang, V; Durinck, S; Robinson, M; Wang, NJ; Vranizan, K; Peng, V; Van Name, E; Fontenay, GV; Ngai, J; Conboy, JG; Parvin, B; Feiler, HS; Speed, TP; Socci, ND; Olshen, A; Lash, A; Reva, B; Antipin, Y; Stukalov, A; Gross, B; Cerami, E; Wang, WQ; Qin, LX; Seshan, VE; Villafania, L; Cavatore, M; Borsu, L; Viale, A; Gerald, W; Topal, MD; Qi, Y; Balu, S; Shi, Y; Wu, G; Bittner, M; Shelton, T; Lenkiewicz, E; Morris, S; Beasley, D; Sanders, S; Sfeir, R; Chen, J; Nassau, D; Feng, L; Hickey, E; Schaefer, C; Madhavan, S; Buetow, K; Barker, A; Vockley, J; Compton, C; Vaught, J; Fielding, P; Collins, F; Good, P; Guyer, M; Ozenberger, B; Peterson, J; Thomson, E

Author(s): Chin, L; Meyerson, M; Aldape, K; Bigner, D; Mikkelsen, T; VandenBerg, S; Kahn, A; Penny, R; Ferguson, ML; Gerhard, DS; Getz, G; Brennan, C; Taylor, BS; Winckler, W; Park, P; Ladanyi, M; Hoadley, KA; Verhaak, RGW; Hayes, DN; Spellman, PT; Absher, D; Weir, BA; Ding, L; Wheeler, D; Lawrence, MS; Cibulskis, K; Mardis, E; Zhang, JH; Wilson, RK; Donehower, L; Wheeler, DA; Purdom, E; Wallis, J; Laird, PW; Herman, JG; Schuebel, KE; Weisenberger, DJ; Baylin, SB; Schultz, N; Yao, J; Wiedemeyer, R; Weinstein, J; Sander, C; Gibbs, RA; Gray, J; Kucherlapati, R; Lander, ES; Myers, RM; Perou, CM; McLendon, R; Friedman, A; Van Meir, EG; Brat, DJ; Mastrogianakis, GM; Olson, JJ; Lehman, N; Yung, WKA; Bogler, O; Berger, M; Prados, M; Muzny, D; Morgan, M; Scherer, S; Sabo, A; Nazareth, L; Lewis, L; Hall, O; Zhu, YM; Ren, YR; Alvi, O; Yao, JQ; Hawes, A; Jhangiani, S; Fowler, G; San Lucas, A; Kovar, C; Cree, A; Dinh, H; Santibanez, J; Joshi, V; Gonzalez-Garay, ML; Miller, CA; Milosavljevic, A; Sougnez, C; Fennell, T; Mahan, S; Wilkinson, J; Ziaugra, L; Onofrio, R; Bloom, T; Nicol, R; Ardlie, K; Baldwin, J; Gabriel, S; Fulton, RS; McLellan, MD; Larson, DE; Shi, XQ; Abbott, R; Fulton, L; Chen, K; Koboldt, DC; Wendl, MC; Meyer, R; Tang, YZ; Lin, L; Osborne, JR; Dunford-Shore, BH; Miner, TL; Delehaunty, K; Markovic, C; Swift, G; Courtney, W; Pohl, C; Abbott, S; Hawkins, A; Leong, S; Haipek, C; Schmidt, H; Wiechert, M; Vickery, T; Scott, S; Dooling, DJ; Chinwalla, A; Weinstock, GM; O'Kelly, M; Robinson, J; Alexe, G; Beroukhim, R; Carter, S; Chiang, D; Gould, J; Gupta, S; Korn, J; Mermel, C; Mesirov, J; Monti, S; Nguyen, H; Parkin, M; Reich, M; Stransky, N; Garraway, L; Golub, T; Protopopov, A; Perna, I; Aronson, S; Sathiamoorthy, N; Ren, G; Kim, H; Kong, SK; Xiao, YH; Kohane, IS; Seidman, J; Cope, L; Pan, F; Van Den Berg, D; Van Neste, L; Yi, JM; Li, JZ; Southwick, A; Brady, S; Aggarwal, A; Chung, T; Sherlock, G; Brooks, JD; Jakkula, LR; Lapuk, AV; Marr, H; Dorton, S; Choi, YG; Han, J; Ray, A; Wang, V; Durinck, S; Robinson, M; Wang, NJ; Vranizan, K; Peng, V; Van Name, E; Fontenay, GV; Ngai, J; Conboy, JG; Parvin, B; Feiler, HS; Speed, TP; Socci, ND; Olshen, A; Lash, A; Reva, B; Antipin, Y; Stukalov, A; Gross, B; Cerami, E; Wang, WQ; Qin, LX; Seshan, VE; Villafania, L; Cavatore, M; Borsu, L; Viale, A; Gerald, W; Topal, MD; Qi, Y; Balu, S; Shi, Y; Wu, G; Bittner, M; Shelton, T; Lenkiewicz, E; Morris, S; Beasley, D; Sanders, S; Sfeir, R; Chen, J; Nassau, D; Feng, L; Hickey, E; Schaefer, C; Madhavan, S; Buetow, K; Barker, A; Vockley, J; Compton, C; Vaught, J; Fielding, P; Collins, F; Good, P; Guyer, M; Ozenberger, B; Peterson, J; Thomson, E;
Details: Publication Year 2008-10-23,Volume 455,Issue #7216,Page 1061-1068
Journal Title: NATURE
Publication Type: Journal Article
Abstract: Human cancer cells typically harbour multiple chromosomal aberrations, nucleotide substitutions and epigenetic modifications that drive malignant transformation. The Cancer Genome Atlas ( TCGA) pilot project aims to assess the value of large- scale multi- dimensional analysis of these molecular characteristics in human cancer and to provide the data rapidly to the research community. Here we report the interim integrative analysis of DNA copy number, gene expression and DNA methylation aberrations in 206 glioblastomas - the most common type of primary adult brain cancer - and nucleotide sequence aberrations in 91 of the 206 glioblastomas. This analysis provides new insights into the roles of ERBB2, NF1 and TP53, uncovers frequent mutations of the phosphatidylinositol- 3- OH kinase regulatory subunit gene PIK3R1, and provides a network view of the pathways altered in the development of glioblastoma. Furthermore, integration of mutation, DNA methylation and clinical treatment data reveals a link between MGMT promoter methylation and a hypermutator phenotype consequent to mismatch repair deficiency in treated glioblastomas, an observation with potential clinical implications. Together, these findings establish the feasibility and power of TCGA, demonstrating that it can rapidly expand knowledge of the molecular basis of cancer.
Publisher: NATURE PUBLISHING GROUP
Keywords: NF1 GENE; MISMATCH REPAIR; NEUROFIBROMATOSIS TYPE-1; SOMATIC MUTATIONS; MALIGNANT GLIOMAS; ALKYLATING-AGENTS; HIGH-FREQUENCY; PIK3CA GENE; CELL-LINES; TUMORS
Publisher's Version: https://doi.org/10.1038/nature07385
Terms of Use/Rights Notice: Refer to copyright notice on published article.

Creation Date: 2008-10-23 12:00:00