Transcriptome profiling in clinical breast cancer: From 3d culture models to prognostic signatures

Journal of Cellular Physiology

Volumn 209, Issue 3, 2006, Pages 625-630

  Fournier, Marcia V ^a,c   Martin, Katherine J ^b  

^a LAWRENCE BERKELEY NATIONAL LABORATORY   (United States)

^b Bio Array   (United States)

^c GLAXOSMITHKLINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

MOLECULAR MARKER; PROSTATE SPECIFIC ANTIGEN; TRANSCRIPTOME;

BREAST CANCER; CANCER CELL CULTURE; CANCER CLASSIFICATION; CANCER SURVIVAL; CONTROLLED STUDY; DISEASE COURSE; DNA FINGERPRINTING; DRUG TARGETING; EARLY DIAGNOSIS; GENETIC RISK; HUMAN; HUMAN CELL; HUMAN TISSUE; MAMMOGRAPHY; PAPANICOLAOU TEST; PRIORITY JOURNAL; PROGNOSIS; RARE DISEASE; SHORT SURVEY; THREE DIMENSIONAL IMAGING; TRANSCRIPTOMICS;

BREAST NEOPLASMS; CELL CULTURE TECHNIQUES; FEMALE; GENE EXPRESSION PROFILING; HUMANS; PROGNOSIS; SURVIVAL RATE; TRANSCRIPTION, GENETIC; TREATMENT OUTCOME; TUMOR CELLS, CULTURED; TUMOR MARKERS, BIOLOGICAL;

EID: 33750520933     PISSN: 00219541     EISSN: None     Source Type: Journal    
DOI: 10.1002/jcp.20787     Document Type: Short Survey

References (36)

1. Axel R, Feigelson P, Schutz G. 1976. Analysis of the complexity and diversity of mRNA from chicken liver and oviduct. Cell 7(2):247-254.
2. Bild AH, Yao G, Chang JT, Wang Q, Potti A, Chasse D, Joshi MB, Harpole D, Lancaster JM, Berchuck A, Olson JA, Jr. Marks JR, Dressman HK, West M, Nevins JR. 2006. Oncogenic pathway signatures in human cancers as a guide to targeted therapies. Nature 439(7074):353-357.
3. Bissell MJ, Barcellos-Hoff MH. 1987. The influence of extracellular matrix on gene expression: Is structure the message? J Cell Sci Suppl 8:327-343.
4. Bissell MJ, Radisky D. 2001. Putting tumours in context. Nat Rev Cancer 1(1):46-54.
5. Debnath J, Brugge JS. 2005. Modelling glandular epithelial cancers in three-dimensional cultures. Nat Rev Cancer 5(9):675-688.
6. Debnath J, Mills KR, Collins NL, Reginato MJ, Muthuswamy SK, Brugge JS. 2002. The role of apoptosis in creating and maintaining luminal space within normal and oncogene-expressing mammary acini. Cell 111(1):29-40.
7. Eisen MB, Spellman PT, Brown PO, Botstein D. 1998. Cluster analysis and display of genome-wide expression patterns. Proc Natl Acad Sci USA 95(25):14863-14868.
8. Etzioni R, Urban N, Ramsey S, McIntosh M, Schwartz S, Reid B, Radich J, Anderson G, Hartwell L. 2003. The case for early detection. Nat Rev Cancer 3(4):243-252.
9. Fidler IJ. 2002. The organ microenvironment and cancer metastasis. Differentiation 70(9-10):498-505.
10. Fournier MV, Guimaraes da Costa F, Paschoal ME, Ronco LV, Carvalho MG, Pardee AB. 1999. Identification of a gene encoding a human oxysterol-binding protein-homologue. A potential general molecular marker for blood dissemination of solid tumors. Cancer Res 59(15):3748-3753.
11. Fournier MV, Martin KJ, Graner E, Pardee AB. 2003. Sensitive assays for detection of lung cancer. Molecular markers in blood samples. Methods Mol Med 75:239-250.
12. Fournier MV, Martin KJ, Kenny PA, Xhaja K, Bosch I, Yaswen P, Bissell M. 2006. Gene expression signature in organized and growth arrested mammary acini predicts good outcome in breast cancer. Cancer Res 66(14).
13. Goldhirsch A, Glick JH, Gelber RD, Coates AS, Senn HJ. 2001. Meeting highlights: International Consensus Panel on the treatment of primary breast cancer. Seventh International Conference on Adjuvant Therapy of Primary Breast Cancer. J Clin Oncol 19(18):3817-3827.
14. Hanahan D, Weinberg RA. 2000. The hallmarks of cancer. Cell 100(1):57-70.
15. Hastie ND, Bishop JO. 1976. The expression of three abundance classes of messenger RNA in mouse tissues. Cell 9(4 PT 2):761-774.
16. Kenny PA, Bissell MJ. 2003. Tumor reversion: Correction of malignant behavior by microenvironmental cues. Int J Cancer 107(5):688-695.
17. Liang P, Pardee AB. 1992. Differential display of eukaryotic messenger RNA by means of the polymerase chain reaction. Science 257(5072):967-971.
18. Martin KJ, Kritzman BM, Price LM, Koh B, Kwan CP, Zhang X, Mackay A, O'Hare MJ, Kaelin CM, Mutter GL, Pardee AB, Sager R. 2000. Linking gene expression patterns to therapeutic groups in breast cancer. Cancer Res 60(8):2232-2238.
19. Martin KJ, Kwan CP, O'Hare MJ, Pardee AB, Sager R. 1998. Identification and verification of differential display cDNAs using gene-specific primers and hybridization arrays. Biotechniques 24(6):1018-1026.
20. Nagasaki K, Miki Y. 2006. Gene expression profiling of breast cancer. Breast Cancer 13(1):2-7.
21. Paik S, Shak S, Tang G, Kim C, Baker J, Cronin M, Baehner FL, Walker MG, Watson D, Park T, Hiller W, Fisher ER, Wickerham DL, Bryant J, Wolmark N. 2004. A multigene assay to predict recurrence of tamoxifen-treated, node-negative breast cancer. N Engl J Med 351(27):2817-2826.
22. Pantel K, Brakenhoff RH. 2004. Dissecting the metastatic cascade. Nat Rev Cancer 4(6):448-456.
23. Pardee AB. 2006. Regulatory molecular biology. Cell Cycle 5(8):846-852.
24. Perou CM, Jeffrey SS, van de Rijn M, Rees CA, Eisen MB, Ross DT, Pergamenschikov A, Williams CF, Zhu SX, Lee JC, Lashkari D, Shalon D, Brown PO, Botstein D. 1999. Distinctive gene expression patterns in human mammary epithelial cells and breast cancers. Proc Natl Acad Sci USA 96(16):9212-9217.
25. Perou CM, Sorlie T, Eisen MB, van de Rijn M, Jeffrey SS, Rees CA, Pollack JR, Ross DT, Johnsen H, Akslen LA, Fluge O, Pergamenschikov A, Williams C, Zhu SX, Lonning PE, Borresen-Dale AL, Brown PO, Botstein D. 2000. Molecular portraits of human breast tumours. Nature 406(6797):747-752.
26. Petersen OW, Ronnov-Jessen L, Howlett AR, Bissell MJ. 1992. Interaction with basement membrane serves to rapidly distinguish growth and differentiation pattern of normal and malignant human breast epithelial cells. Proc Natl Acad Sci USA 89(19):9064-9068.
27. Ramaswamy S, Golub TR. 2002. DNA microarrays in clinical oncology. J Clin Oncol 20(7):1932-1941.
28. Sherr CJ. 1996. Cancer cell cycles. Science 274(5293):1672-1677.
29. Sherr CJ, Roberts JM. 1999. CDK inhibitors: Positive and negative regulators of G1-phase progression. Genes Dev 13(12):1501-1512.
30. Tinker AV, Boussioutas A, Bowtell DD. 2006. The challenges of gene expression microarrays for the study of human cancer. Cancer Cell 9(5):333-339.
31. van't Veer LJ, Dai H, van de Vijver MJ, He YD, Hart AA, Mao M, Peterse HL, van der Kooy K, Marton MJ, Witteveen AT, Schreiber GJ, Kerkhoven RM, Roberts C, Linsley PS, Bernards R, Friend SH. 2002. Gene expression profiling predicts clinical outcome of breast cancer. Nature 415(6871):530-536.
32. van de Vijver MJ, He YD, van't Veer LJ, Dai H, Hart AA, Voskuil DW, Schreiber GJ, Peterse JL, Roberts C, Marton MJ, Parrish M, Atsma D, Witteveen A, Glas A, Delahaye L, van der Velde T, Bartelink H, Rodenhuis S, Rutgers ET, Friend SH, Bernards R. 2002. A gene-expression signature as a predictor of survival in breast cancer. N Engl J Med 347(25):1999-2009.
33. Wang Y. 2005. Gene expression-driven diagnostics and pharmacogenomics in cancer. Curr Opin Mol Ther 7(3):246-250.
34. Wang Y, Klijn JG, Zhang Y, Sieuwerts AM, Look MP, Yang F, Talantov D, Timmermans M, Meijer-van Gelder ME, Yu J, Jatkoe T, Berns EM, Atkins D, Foekens JA. 2005. Gene-expression profiles to predict distant metastasis of lymph-node-negative primary breast cancer. Lancet 365(9460):671-679.
35. Weaver VM, Lelievre S, Lakins JN, Chrenek MA, Jones JC, Giancotti F, Werb Z, Bissell MJ. 2002. beta4 integrin-dependent formation of polarized three-dimensional architecture confers resistance to apoptosis in normal and malignant mammary epithelium. Cancer Cell 2(3):205-216.
36. Weaver VM, Petersen OW, Wang F, Larabell CA, Briand P, Damsky C, Bissell MJ. 1997. Reversion of the malignant phenotype of human breast cells in three-dimensional culture and in vivo by integrin blocking antibodies. J Cell Biol 137(1):231-245.