Core signaling pathways in human pancreatic cancers revealed by global genomic analyses

Science

Volumn 321, Issue 5897, 2008, Pages 1801-1806

  Jones, Siân ^a   Zhang, Xiaosong ^a   Parsons, D Williams ^a,b   Lin, Jimmy Cheng Ho ^a   Leary, Rebecca J ^a   Angenendt, Philipp ^a   Mankoo, Parminder ^c   Carter, Hannah ^c   Kamiyama, Hirohiko ^c   Jimeno, Antonio ^a   Hong, Seung Mo ^c   Fu, Baojin ^c   Lin, Ming Tseh ^c   Calhoun, Eric S ^a   Kamiyama, Mihoko ^c   Walter, Kimberly ^c   Nikolskaya, Tatiana ^d   Nikolsky, Yuri ^e   Hartigan, James ^f   Smith, Douglas R ^f   Hidalgo, Manuel ^a   Leach, Steven D ^a,c   Klein, Alison P ^a,c   Jaffee, Elizabeth M ^a,c   Goggins, Michael ^a,c   Maitra, Anirban ^a,c   Iacobuzio Donahue, Christine ^a,c   Eshleman, James R ^a,c   Kern, Scott E ^a,c   Hruban, Ralph H ^a,c   Karchin, Rachel ^c   Papadopoulos, Nickolas ^a   Parmigiani, Giovanni ^a,g   Vogelstein, Bert ^a   Velculescu, Victor E ^a   Kinzler, Kenneth W ^a   more..

^a JOHNS HOPKINS UNIVERSITY   (United States)

^b BAYLOR COLLEGE OF MEDICINE   (United States)

^c DEPARTMENT OF PATHOLOGY   (United States)

^d VAVILOV INSTITUTE OF GENERAL GENETICS   (Russian Federation)

^e GeneGo bioinformatics software Inc   (United States)

^f Agencourt Bioscience Corporation   (United States)

^g JOHNS HOPKINS BLOOMBERG SCHOOL OF PUBLIC HEALTH   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

TRANSCRIPTOME;

CANCER; ENDOCRINE SYSTEM; GENETIC ANALYSIS; MUTATION; POLYMORPHISM; SIGNALING; TUMOR;

ARTICLE; CARCINOGENESIS; GENE AMPLIFICATION; GENE DELETION; GENE SEQUENCE; GENETIC ANALYSIS; GENOMICS; HUMAN; PANCREAS CANCER; POINT MUTATION; PRIORITY JOURNAL; SIGNAL TRANSDUCTION; SINGLE NUCLEOTIDE POLYMORPHISM;

ADENOCARCINOMA; ALGORITHMS; CARCINOMA, PANCREATIC DUCTAL; COMPUTATIONAL BIOLOGY; GENE AMPLIFICATION; GENE EXPRESSION PROFILING; GENOME, HUMAN; HUMANS; MODELS, MOLECULAR; MUTATION; MUTATION, MISSENSE; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; PANCREATIC NEOPLASMS; POINT MUTATION; POLYMORPHISM, SINGLE NUCLEOTIDE; SEQUENCE DELETION; SIGNAL TRANSDUCTION;

EID: 52149123619     PISSN: 00368075     EISSN: 10959203     Source Type: Journal    
DOI: 10.1126/science.1164368     Document Type: Article

References (43)

1. D. M. Parkin, F. I. Bray, S. S. Devesa, Eur. J. Cancer 37 (suppl.), S4 (2001).
2. A. Jemal et al., CA Cancer J. Clin. 58, 71 (2008).
3. J. B. Koorstra, S. R. Hustinx, G. J. Offerhaus, A. Maitra, Pancreatology 8, 110 (2008).
4. E. Efthimiou, T. Crnogorac-Jurcevic, N. R. Lemoine, Pancreatology 1, 571 (2001).
5. M. Mimeault, R. E. Brand, A. A. Sasson, S. K. Batra, Pancreas 31, 301 (2005).
6. D. A. Tuveson, S. R. Hingorani, Cold Spring Harb. Symp. Quant. Biol. 70, 65 (2005).
7. E. M. Jaffee, R. H. Hruban, M. Canto, S. E. Kern, Cancer Cell 2, 25 (2002).
8. A. Maitra, R. H. Hruban, Annu. Rev. Pathol. 3, 157 (2008).
9. Materials and methods are available as supporting material on Science Online.
10. J. M. Winter, J. R. Brody, S. E. Kern, Cancer Biol. Ther. 5, 360 (2006).
11. B. Rubio-Viqueira et al., Clin. Cancer Res. 12, 4652 (2006).
12. S. Jones et al., Proc. Natl. Acad. Sci. U.S.A. 105, 4283 (2008).
13. T. Sjoblom et al., Science 314, 268 (2006).
14. L. D. Wood et al., Science 318, 1108 (2007).
15. D. W. Parsons et al., Science 321, 1807 (2008).
16. A. Hartmann, H. Blaszyk, J. S. Kovach, S. S. Sommer, Trends Genet. 13, 27 (1997).
17. S. P. Hussain, C. C. Harris, Mutat. Res. 428, 23 (1999).
18. P. C. Ng, S. Henikoff, Nucleic Acids Res. 31, 3812 (2003).
19. R. Karchin, Structural models of mutants identified in pancreatic cancers, http://karchinlab.org/Mutants/CAN-genes/pancreatic/Pancreatic_cancer. html (2008).
20. W. M. Klein, R. H. Hruban, A. J. Klein-Szanto, R. E. Wilentz, Mod. Pathol. 15, 441 (2002).
21. H.-P. Elsasser, G. Adler, H. F. Kern, in The Pancreas, V. L. W. Go et al., Eds. (Raven, New York, 1993), pp. 75-86.
22. R. J. Leary et al., Proc. Natl. Acad. Sci. U.S.A., in press.
23. A. G. Knudson, Am. J. Med. Genet. 111, 96 (2002).
24. S. R. Hustinx et al., Mod. Pathol. 18, 959 (2005).
25. A. Varshavsky, Proc. Natl. Acad. Sci. U.S.A. 104, 14935 (2007).
26. C. Greenman, R. Wooster, P. A. Futreal, M. R. Stratton, D. F. Easton, Genetics 173, 2187 (2006).
27. S. Ekins, Y. Nikolsky, A. Bugrim, E. Kirillov, T. Nikolskaya, Methods Mol. Biol. 356, 319 (2007).
28. V. E. Velculescu, L. Zhang, B. Vogelstein, K. W. Kinzler, Science 270, 484 (1995).
29. M. Sultan et al., Science 321, 956 (2008).
30. R. Lister et al., Cell 133, 523 (2008).
31. A. Mortazavi, B. A. Williams, K. McCue, L. Schaeffer, B. Wold, Nat. Methods 5, 621 (2008).
32. R. Morin et al., Biotechniques 45, 81 (2008).
33. T. Furukawa et al., Am. J. Pathol. 148, 1763 (1996).
34. H. Ouyang et al., Am. J. Pathol. 157, 1623 (2000).
35. A. H. Owens, D. S. Coffey, S. B. Baylin, Tumor Cell Heterogeneity (Academic Press, New York, 1982).
36. J. Lin et al., Genome Res. 17, 1304 (2007).
37. T. W. Chittenden et al., Genomics 91, 508 (2008).
38. E. J. Edelman, J. Guinney, J. Chi, P. Febbo, S. Mukherjee, PLOS Comput. Biol. 4, e28 (2008).
39. D. Hanahan, R. A. Weinberg, Cell 100, 57 (2000).
40. B. Vogelstein, K. W. Kinzler, Nat. Med. 10, 789 (2004).
41. Single-letter abbreviations for the amino acid residues are as follows: A, Ala; C, Cys; D, Asp; E, Glu; F, Phe; G, Gly; H, His; I, Ile; K, Lys; L, Leu; M, Met; N, Asn; P, Pro; Q, Gln; R, Arg; S, Ser; T, Thr; V, Val; W, Trp; and Y, Tyr.
42. E. F. Pettersen et al., J. Comput. Chem. 25, 1605 (2004).
43. Contact information for the authors who directed the major components of this project is as follows: J. R. Eshleman, S. E. Kern (clinical and sample coordination), jeshlem@jhmi.edu, sk@mail.jhmi.edu; R. H. Hruban (pathological review), rhruban@jhmi.edu; R. Karchin (bioinformatic analysis), karchin@jhu.edu; N. Papadopoulos (gene expression analysis), npapado1@jhmi.edu; G. Parmigiani (statistical analysis), gp@jhu.edu; B. Vogelstein, V. E. Velculescu, K. W. Kinzler (sequencing and copy number analysis), bertvog@gmail.com, velculescu@jhmi.edu, kinzlke@jhmi.edu. We thank J. Ptak, N. Silliman, L. Dobbyn, M. Whalen, M. Borges, G. Cusatis, M. Griffith, C. Henderson, C. Karikari, G. Mo, M. Mullendore, E. Palmisano, M. Raben, S. Solt, and D. Trusty for expert technical assistance; T. Sjöblom for help with database management for mutational analyses; Y. Ding for help with bioinformatic analyses; and J. Cameron, G. Feldmann, S. Salaria, L. Hua, and C. Yeo for helpful discussions. This project was performed under the auspices of the Goldman Pancreatic Cancer Genome Initiative and was funded by the Sol Goldman Charitable Trust; the Lillian Goldman Charitable Trust; the Lustgarten Foundation for Pancreatic Cancer Research; the Virginia and D. K. Ludwig Fund for Cancer Research; the Susan G. Komen Foundation; the Michael Rolfe Pancreatic Cancer Foundation; the Joseph C. Monastra Foundation for Pancreatic Cancer; the family and friends of George Rubis; the Viragh Family Foundation; the Broad Foundation; the Emerald Foundation; NIH grants CA62924, CA43460, CA57345, and CA121113; and Beckman Coulter Corporation. Under separate licensing agreements between the Johns Hopkins University and Genzyme, Beckman Coulter, and Exact Sciences Corporations, 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 and Exact Sciences 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.