Cancer genome landscapes

Science

Volumn 340, Issue 6127, 2013, Pages 1546-1558

  Vogelstein, Bert ^a   Papadopoulos, Nickolas ^a   Velculescu, Victor E ^a   Zhou, Shibin ^a   Diaz, Luis A ^a   Kinzler, Kenneth W ^a  

^a JOHNS HOPKINS UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DNA POLYMERASE; MUTAGENIC AGENT;

CANCER; GENETIC ANALYSIS; GENOME; MORBIDITY; MORTALITY; MUTATION; RESEARCH WORK; TUMOR;

BRAIN TUMOR; CANCER GENETICS; CANCER GENOME; CANCER MORTALITY; CANCER RESEARCH; CARCINOGENESIS; CELL FATE; CELL SURVIVAL; CHILDHOOD CANCER; COLORECTAL CANCER; GENE MUTATION; GENE SEQUENCE; GENE TRANSLOCATION; GENOME; HUMAN; MORBIDITY; NEOPLASM; PANCREAS CANCER; PRIORITY JOURNAL; REVIEW; SIGNAL TRANSDUCTION; SOMATIC MUTATION; TUMOR GROWTH; CELL TRANSFORMATION; GENETIC HETEROGENEITY; GENETICS; HUMAN GENOME; MUTAGENESIS; MUTATION; TUMOR GENE;

CELL TRANSFORMATION, NEOPLASTIC; GENES, NEOPLASM; GENETIC HETEROGENEITY; GENOME, HUMAN; HUMANS; MUTAGENESIS; MUTATION; NEOPLASMS; SIGNAL TRANSDUCTION;

MLCS; MLOWN;

EID: 84875490185     PISSN: 00368075     EISSN: 10959203     Source Type: Journal    
DOI: 10.1126/science.1235122     Document Type: Review

References (152)

1. L. D. Wood et al., Science 318, 1108 (2007).
2. D. W. Parsons et al., Science 321, 1807 (2008).
3. S. Jones et al., Science 321, 1801 (2008).
4. R. Govindan et al., Cell 150, 1121 (2012).
5. R. Gryfe, S. Gallinger, Surgery 130, 17 (2001).
6. The Cancer Genome Atlas Network, Nature 487, 330 (2012).
7. C. Palles et al., Nat. Genet. 45, 136 (2013).
8. P. C. Nowell, Science 194, 23 (1976).
9. E. R. Fearon, B. Vogelstein, Cell 61, 759 (1990).
10. K. W. Kinzler, B. Vogelstein, Nature 386, 761 (1997).
11. S. Jones et al., Proc. Natl. Acad. Sci. U.S.A. 105, 4283 (2008).
12. I. Bozic et al., Proc. Natl. Acad. Sci. U.S.A. 107, 18545 (2010).
13. C. Tomasetti, B. Vogelstein, G. Parmigiani, Proc. Natl. Acad. Sci. U.S.A. 110, 1999 (2013).
14. E. Laurenti, J. E. Dick, Ann. N.Y. Acad. Sci. 1266, 68 (2012).
15. J. S. Welch et al., Cell 150, 264 (2012).
16. S. Yachida et al., Nature 467, 1114 (2010).
17. R. S. Kerbel, Adv. Cancer Res. 55, 87 (1990).
18. R. Bernards, R. A. Weinberg, Nature 418, 823 (2002).
19. M. Yu, S. Stott, M. Toner, S. Maheswaran, D. A. Haber, J. Cell Biol. 192, 373 (2011).
20. J. Komori, L. Boone, A. DeWard, T. Hoppo, E. Lagasse, Nat. Biotechnol. 30, 976 (2012).
21. M. Pelizzola, J. R. Ecker, FEBS Lett. 585, 1994 (2011).
22. G. Parmigiani et al., Genomics 93, 17 (2009).
23. M. Meyerson, S. Gabriel, G. Getz, Nat. Rev. Genet. 11, 685 (2010).
24. H. Carter et al., Cancer Res. 69, 6660 (2009).
25. A. Youn, R. Simon, Bioinformatics 27, 175 (2011).
26. J. S. Kaminker, Y. Zhang, C. Watanabe, Z. Zhang, Nucleic Acids Res. 35, W595 (2007).
27. J. J. Michaelson et al., Cell 151, 1431 (2012).
28. S. Nik-Zainal et al., Cell 149, 979 (2012).
29. S. Thiagalingam et al., Nat. Genet. 13, 343 (1996).
30. S. A. Forbes et al., Nucleic Acids Res. 39, D945 (2011).
31. H. Yan et al., N. Engl. J. Med. 360, 765 (2009).
32. S. Zhao et al., Science 324, 261 (2009).
33. P. S. Ward et al., Cancer Cell 17, 225 (2010).
34. L. Dang et al., Nature 465, 966 (2010).
35. W. S. Pear, J. C. Aster, Curr. Opin. Hematol. 11, 426 (2004).
36. M. Nicolas et al., Nat. Genet. 33, 416 (2003).
37. A. P. Weng et al., Science 306, 269 (2004).
38. N. Agrawal et al., Science 333, 1154 (2011).
39. N. Stransky et al., Science 333, 1157 (2011).
40. N. Agrawal et al., Cancer Discovery 2, 899 (2012).
41. D. W. Parsons et al., Science 331, 435 (2011).
42. L. Pasqualucci et al., Nat. Genet. 43, 830 (2011).
43. R. D. Morin et al., Nature 476, 298 (2011).
44. C. S. Grasso et al., Nature 487, 239 (2012).
45. M. J. Ellis et al., Nature 486, 353 (2012).
46. K. C. Wiegand et al., N. Engl. J. Med. 363, 1532 (2010).
47. S. Jones et al., Science 330, 228 (2010).
48. S. Jones et al., Hum. Mutat. 33, 100 (2012).
49. K. Wang et al., Nat. Genet. 43, 1219 (2011).
50. J. Huang et al., Nat. Genet. 44, 1117 (2012).
51. M. Imielinski et al., Cell 150, 1107 (2012).
52. C. M. Rudin et al., Nat. Genet. 44, 1111 (2012).
53. F. Delhommeau et al., N. Engl. J. Med. 360, 2289 (2009).
54. J. Schwartzentruber et al., Nature 482, 226 (2012).
55. G. Wu et al., Nat. Genet. 44, 251 (2012).
56. T. J. Ley et al., N. Engl. J. Med. 363, 2424 (2010).
57. G. L. Dalgliesh et al., Nature 463, 360 (2010).
58. M. L. Suvà, N. Riggi, B. E. Bernstein, Science 339, 1567 (2013).
59. E. Papaemmanuil et al., N. Engl. J. Med. 365, 1384 (2011).
60. T. A. Graubert et al., Nat. Genet. 44, 53 (2012).
61. K. Yoshida et al., Nature 478, 64 (2011).
62. Y. Jiao et al., Science 331, 1199 (2011).
63. A. J. Cesare, R. R. Reddel, Nat. Rev. Genet. 11, 319 (2010).
64. C. M. Heaphy et al., Science 333, 425 (2011).
65. M. G. Vander Heiden, L. C. Cantley, C. B. Thompson, Science 324, 1029 (2009).
66. C. Lu et al., Nature 483, 474 (2012).
67. S. Turcan et al., Nature 483, 479 (2012).
68. P. J. Stephens et al., Cell 144, 27 (2011).
69. A. J. Bass et al., Nat. Genet. 43, 964 (2011).
70. S. A. Tomlins et al., Science 310, 644 (2005).
71. M. Soda et al., Nature 448, 561 (2007).
72. P. Armitage, R. Doll, Br. J. Cancer 8, 1 (1954).
73. R. Böttcher et al., Nucleic Acids Res. 40, e125 (2012).
74. M. Forster et al., Nucleic Acids Res. 41, e16 (2013).
75. J. Ding et al., Bioinformatics 28, 167 (2012).
76. M. A. Beal, T. C. Glenn, C. M. Somers, Mutat. Res. 750, 96 (2012).
77. F. Mertes et al., Brief. Funct. Genomics 10, 374 (2011).
78. M. Gundry, J. Vijg, Mutat. Res. 729, 1 (2012).
79. A. V. Biankin et al., Nature 491, 399 (2012).
80. H. Yan, K. W. Kinzler, B. Vogelstein, Science 289, 1890 (2000).
81. F. W. Huang et al., Science 339, 957 (2013).
82. S. Horn et al., Science 339, 959 (2013).
83. W. Xue et al., Proc. Natl. Acad. Sci. U.S.A. 109, 8212 (2012).
84. N. L. Solimini et al., Science 337, 104 (2012).
85. A. D. Beggs et al., J. Pathol. 10.1002/path.4132 (2012).
86. A. P. Feinberg, B. Tycko, Nat. Rev. Cancer 4, 143 (2004).
87. P. A. Jones, S. B. Baylin, Cell 128, 683 (2007).
88. M. Höglund, D. Gisselsson, T. Säll, F. Mitelman, Cancer Genet. Cytogenet. 135, 103 (2002).
89. D. Shibata, J. Schaeffer, Z. H. Li, G. Capella, M. Perucho, J. Natl. Cancer Inst. 85, 1058 (1993).
90. A. Sottoriva, I. Spiteri, D. Shibata, C. Curtis, S. Tavaré, Cancer Res. 73, 41 (2013).
91. S. P. Shah et al., Nature 461, 809 (2009).
92. K. Anderson et al., Nature 469, 356 (2011).
93. N. Navin et al., Nature 472, 90 (2011).
94. S. Nik-Zainal et al., Cell 149, 994 (2012).
95. M. Gerlinger et al., N. Engl. J. Med. 366, 883 (2012).
96. X. Xu et al., Cell 148, 886 (2012).
97. P. J. Campbell et al., Nature 467, 1109 (2010).
98. N. Wagle et al., J. Clin. Oncol. 29, 3085 (2011).
99. N. L. Komarova, D. Wodarz, Proc. Natl. Acad. Sci. U.S.A. 102, 9714 (2005).
100. A. B. Turke et al., Cancer Cell 17, 77 (2010).
101. R. Durrett, S. Moseley, Theor. Popul. Biol. 77, 42 (2010).
102. L. A. Diaz Jr. et al., Nature 486, 537 (2012).
103. A. Kreso et al., Science 339, 543 (2013).
104. P. J. Stephens et al., Nature 486, 400 (2012).
105. The Cancer Genome Atlas Network, Nature 490, 61 (2012).
106. H. Pang et al., Cancer Res. 69, 8868 (2009).
107. J. Chen, Y. Ye, H. Sun, G. Shi, Cancer Chemother. Pharmacol. 71, 265 (2013).
108. P. B. Chapman et al., N. Engl. J. Med. 364, 2507 (2011).
109. E. L. Kwak et al., N. Engl. J. Med. 363, 1693 (2010).
110. M. Ljungman, D. P. Lane, Nat. Rev. Cancer 4, 727 (2004).
111. N. Perrimon, C. Pitsouli, B. Z. Shilo, Cold Spring Harb. Perspect. Biol. 4, a005975 (2012).
112. R. S. Kerbel, N. Engl. J. Med. 358, 2039 (2008).
113. A. S. Chung, N. Ferrara, Annu. Rev. Cell Dev. Biol. 27, 563 (2011).
114. J. W. Baish et al., Proc. Natl. Acad. Sci. U.S.A. 108, 1799 (2011).
115. N. E. Hynes, H. A. Lane, Nat. Rev. Cancer 5, 341 (2005).
116. N. Turner, R. Grose, Nat. Rev. Cancer 10, 116 (2010).
117. J. Yun et al., Science 325, 1555 (2009).
118. H. Ying et al., Cell 149, 656 (2012).
119. D. J. Araten et al., Cancer Res. 65, 8111 (2005).
120. T. A. Kunkel, Cold Spring Harb. Symp. Quant. Biol. 74, 91 (2009).
121. B.-B. S. Zhou, S. J. Elledge, Nature 408, 433 (2000).
122. R. H. Medema, L. Macůrek, Oncogene 31, 2601 (2012).
123. F. A. Derheimer, M. B. Kastan, FEBS Lett. 584, 3675 (2010).
124. G. Ciriello, E. Cerami, C. Sander, N. Schultz, Genome Res. 22, 398 (2012).
125. C. H. Yeang, F. McCormick, A. Levine, FASEB J. 22, 2605 (2008).
126. S. V. Sharma, D. W. Bell, J. Settleman, D. A. Haber, Nat. Rev. Cancer 7, 169 (2007).
127. H. L. McLeod, Science 339, 1563 (2013).
128. D. W. Brock, Oncologist 15 (suppl. 1), 36 (2010).
129. M. A. Lemmon, J. Schlessinger, Cell 141, 1117 (2010).
130. M. R. Arkin, J. A. Wells, Nat. Rev. Drug Discov. 3, 301 (2004).
131. R. J. Bienstock, Curr. Pharm. Des. 18, 1240 (2012).
132. A. Besson, S. F. Dowdy, J. M. Roberts, Dev. Cell 14, 159 (2008).
133. P. J. Morin et al., Science 275, 1787 (1997).
134. T. C. He et al., Science 281, 1509 (1998).
135. M. van de Wetering et al., Cell 111, 241 (2002).
136. H. Farmer et al., Nature 434, 917 (2005).
137. S. Irshad, A. Ashworth, A. Tutt, Expert Rev. Anticancer Ther. 11, 1243 (2011).
138. D. A. Grueneberg et al., Proc. Natl. Acad. Sci. U.S.A. 105, 16472 (2008).
139. M. Mao et al., Clin. Cancer Res. 19, 657 (2013).
140. J. M. Kirkwood et al., CA Cancer J. Clin. 62, 309 (2012).
141. T. Barrett et al., Nucleic Acids Res. 39, D1005 (2011).
142. N. H. Segal et al., Cancer Res. 68, 889 (2008).
143. J. C. Castle et al., Cancer Res. 72, 1081 (2012).
144. J. H. Sampson et al., J. Clin. Oncol. 28, 4722 (2010).
145. H. Matsushita et al., Nature 482, 400 (2012).
146. M. DuPage, C. Mazumdar, L. M. Schmidt, A. F. Cheung, T. Jacks, Nature 482, 405 (2012).
147. M. Challa-Malladi et al., Cancer Cell 20, 728 (2011).
148. F. S. Hodi et al., N. Engl. J. Med. 363, 711 (2010).
149. S. L. Topalian et al., N. Engl. J. Med. 366, 2443 (2012).
150. B. K. Dunn, K. Jegalian, P. Greenwald, Recent Results Cancer Res. 188, 21 (2011).
151. L. C. Lopes, S. Barberato-Filho, A. C. Costa, C. G. S. Osorio-de-Castro, Rev. Saude Publica 44, 620 (2010).
152. G. A. Colditz, K. Y. Wolin, S. Gehlert, Sci. Transl. Med. 4, 127rv4 (2012).