The genomic landscapes of human breast and colorectal cancers

Science

Volumn 318, Issue 5853, 2007, Pages 1108-1113

  Wood, Laura D ^a   Parsons, D Williams ^a   Jones, Siân ^a   Lin, Jimmy ^a   Sjöblom, Tobias ^a,n   Leary, Rebecca J ^a   Shen, Dong ^a   Boca, Simina M ^a,b   Barber, Thomas ^a,o   Ptak, Janine ^a   Silliman, Natalie ^a   Szabo, Steve ^a   Dezso, Zoltan ^c   Ustyanksky, Vadim ^c   Nikolskaya, Tatiana ^c,d   Nikolsky, Yuri ^c   Karchin, Rachel ^e   Wilson, Paul A ^e   Kaminker, Joshua S ^f   Zhang, Zemin ^f   Croshaw, Randal ^g   Willis, Joseph ^h   Dawson, Dawn ^h   Shipitsin, Michail ⁱ   Willson, James K V ^j   Sukumar, Saraswati ^a   Polyak, Kornelia ⁱ   Ben, Ho Park ^a   Pethiyagoda, Charit L ^k   Pant, P V Krishna ^k   Ballinger, Dennis G ^k   Sparks, Andrew B ^k,p   Hartigan, James ^l   Smith, Douglas R ^l   Suh, Erick ^l   Papadopoulos, Nickolas ^a   Buckhaults, Phillip ^g   Markowitz, Sanford D ^m   Parmigiani, Giovanni ^a   Kinzler, Kenneth W ^a   Velculescu, Victor E ^a   Vogelstein, Bert ^a   more..

^a JOHNS HOPKINS UNIVERSITY   (United States)

^b DEPARTMENT OF PATHOLOGY   (United States)

^c GeneGo bioinformatics software Inc   (United States)

^d VAVILOV INSTITUTE OF GENERAL GENETICS   (Russian Federation)

^e Johns Hopkins University   (United States)

^f GENENTECH INC   (United States)

^g UNIVERSITY OF SOUTH CAROLINA SCHOOL OF MEDICINE   (United States)

^h CASE WESTERN RESERVE UNIVERSITY SCHOOL OF MEDICINE   (United States)

ⁱ HARVARD MEDICAL SCHOOL   (United States)

^j UNIVERSITY OF TEXAS SOUTHWESTERN MEDICAL CENTER   (United States)

^k Perlegen Sciences Inc   (United States)

^l Agencourt Bioscience Corporation   (United States)

^m CASE WESTERN RESERVE UNIVERSITY   (United States)

ⁿ UPPSALA UNIVERSITY   (Sweden)

^o ELI LILLY AND COMPANY   (United States)

^p Complete Genomics ^*  (United States)

more..

Author keywords

[No Author keywords available]

Indexed keywords

BIOINFORMATICS; CANCER; GENETIC ANALYSIS; GENOMICS; LANDSCAPE; MUTATION;

ARTICLE; BREAST CANCER; CANCER GROWTH; COLON CANCER; CONTROLLED STUDY; GENE MUTATION; GENE SEQUENCE; GENETIC ASSOCIATION; GENETIC HETEROGENEITY; HUMAN; LANDSCAPE; MUTATIONAL ANALYSIS; PRIORITY JOURNAL;

ANIMALS; BREAST NEOPLASMS; CELL LINE; CHROMOSOME MAPPING; COLORECTAL NEOPLASMS; COMPUTATIONAL BIOLOGY; DATABASES, GENETIC; DNA, NEOPLASM; GENES, NEOPLASM; GENOME, HUMAN; HUMANS; METABOLIC NETWORKS AND PATHWAYS; MICE; MUTATION; NEOPLASM PROTEINS; SEQUENCE ANALYSIS, DNA;

EID: 36248962105     PISSN: 00368075     EISSN: 10959203     Source Type: Journal    
DOI: 10.1126/science.1145720     Document Type: Article

References (35)

1. B. Vogelstein, K. W. Kinzler, Nat. Med. 10, 789 (2004).
2. P. A. Futreal et al., Nat. Rev. Cancer 4, 177 (2004).
3. A. Bardelli, V. E. Velculescu, Curr. Opin. Genet. Dev. 15, 5 (2005).
4. C. Greenman et al., Nature 446, 153 (2007).
5. T. Sjöblom et al., Science 314, 268 (2006).
6. K. D. Pruitt, T. Tatusova, D. R. Maglott, Nucleic Acids Res. 35, D61 (2007).
7. See supporting material on Science Online.
8. M. Cargill et al., Nat. Genet. 22, 231 (1999).
9. M. K. Halushka et al., Nat. Genet. 22, 239 (1999).
10. P. Stephens et al., Nat. Genet. 37, 590 (2005).
11. J. V. Chamary, J. L. Parmley, L. D. Hurst, Nat. Rev. Genet. 7, 98 (2006).
12. R. Karchin, Structural models of mutants identified in breast cancers; http://karchinlab.org/RefSeqMutants/breast.html.
13. R. Karchin, Structural models of mutants identified in colorectal cancers. http://karchinlab.org/RefSeqMutants/colorectal.html.
14. R. Karchin et al., Bioinformatics 21, 2814 (2005).
15. S. Bolk et al., Proc. Natl. Acad. Sci. U.S.A. 97, 268 (2000).
16. L. F. Onuchic et al., Am. J. Hum. Genet. 70, 1305 (2002).
17. A. I. den Hollander et al., Nat. Genet. 23, 217 (1999).
18. Y. Samuels et al., Science 304, 554 (2004).
19. K. E. Bachman et al., Cancer Biol. Ther. 3, 772 (2004).
20. D. K. Broderick et al., Cancer Res. 64, 5048 (2004).
21. J. W. Lee et al., Oncogene 24, 1477 (2005).
22. A. Bagchi et al., Cell 128, 459 (2007).
23. J. S. Boehm et al., Cell 129, 1065 (2007).
24. M. Satpathy et al., Cancer Res. 67, 7194 (2007).
25. V. Theodorou et al., Nat. Genet. 39, 759 (2007).
26. N. Beerenwinkel et al., PLoS Comput. Biol. 3, e225 (2007).
27. A. Bardelli et al., Science 300, 949 (2003).
28. D. W. Parsons et al., Nature 436, 792 (2005).
29. R. K. Thomas et al., Nat. Genet. 39, 347 (2007).
30. C. M. Annunziata et al., Cancer Cell 12, 115 (2007).
31. J. J. Keats et al., Cancer Cell 12, 131 (2007).
32. F. Diehl, L. A. Diaz Jr., Curr. Opin. Oncol. 19, 36 (2007).
33. R. Sanchez, A. Sali, Proc. Natl. Acad. Sci. U.S.A. 95, 13597 (1998).
34. E. F. Pettersen et al., J. Comput. Chem. 25, 1605 (2004).
35. We thank J. Lutterbaugh, E. Lawrence, and L. Beard for assistance with cell culture and DNA preparation; K. Makowski and the Agencourt sequencing team for assistance with automated sequencing; C.-S. Liu and the SoftGenetics team for their assistance with mutation detection analyses; and D. H. Nguyen of the Johns Hopkins Department of Art as Applied to Medicine for the artwork in Fig. 3. Supported by The Virginia and D. K. Ludwig Fund for Cancer Research; NIH grants CA121113, CA 43460, CA 57345, CA62924, GM07309, RR017698, P30-CA43703, CA109274, GM070219, and CA112828; NCI Division of Cancer Prevention contract HHSN261200433002C; Department of Defense grant DAMD17-03-1-0241; NSF grant DMS034211; The Pew Charitable Trusts; The Palmetto Health Foundation; The Maryland Cigarette Restitution Fund; The State of Ohio Biomedical Research and Technology Transfer Commission; The Clayton Fund; The Blaustein Foundation; The National Colorectal Cancer Research Alliance; the Strang Cancer Prevention Center; the Division of Cancer Prevention of the National Cancer Institute; the Avon Foundation; The Flight Attendant's Medical Research Institute; the V Foundation for Cancer Research; the Summer Running Fund; and The Palmetto Health Foundation. Under separate licensing agreements between the Johns Hopkins University and Genzyme Corporation and Exact Sciences Corporation, K.W.K., B.V., and V.E.V. are entitled to a share of royalties received by the University on sales of products related to research described in this paper. These authors and the University own Genzyme stock, which is subject to certain restrictions under University policy. The terms of these arrangements are managed by the Johns Hopkins University in accordance with its conflict-of-interest policies.