Progression-specific genes identified by expression profiling of matched ductal carcinomas in situ and invasive breast tumors, combining laser capture microdissection and oligonucleotide microarray analysis

Cancer Research

Volumn 66, Issue 10, 2006, Pages 5278-5286

  Schuetz, Christina S ^a   Bonin, Michael ^b   Clare, Susan E ^c   Nieselt, Kay ^b   Sotlar, Karl ^b   Walter, Michael ^b   Fehm, Tanja ^a   Solomayer, Erich ^a   Riess, Olaf ^b   Wallwiener, Diethelm ^a   Kurek, Raffael ^a   Neubauer, Hans J ^a,d  

^a UNIVERSITY HOSPITAL TÜBINGEN   (Germany)

^b UNIVERSITY OF TÜBINGEN   (Germany)

^c INDIANA UNIVERSITY SCHOOL OF MEDICINE   (United States)

^d Gynecological Hospital   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

BULLOUS PEMPHIGOID ANTIGEN 1; GENE PRODUCT; MESSENGER RNA; MOLECULAR MARKER;

ACCURACY; ARTICLE; BREAST TUMOR; CANCER INVASION; CARCINOMA IN SITU; CLUSTER ANALYSIS; DNA MICROARRAY; EPITHELIUM TUMOR; GENE AMPLIFICATION; GENE EXPRESSION; GENE IDENTIFICATION; GENE PROBE; GENE REPLICATION; HUMAN; HUMAN TISSUE; IMMUNOHISTOCHEMISTRY; IN SITU HYBRIDIZATION; LASER CAPTURE MICRODISSECTION; MOLECULAR BIOLOGY; PHYLOGENETIC TREE; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN LOCALIZATION; REPRODUCIBILITY; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; RNA EXTRACTION; STATISTICAL ANALYSIS; VALIDATION STUDY;

BREAST NEOPLASMS; CARCINOMA IN SITU; CARCINOMA, DUCTAL, BREAST; CELL MOVEMENT; CLUSTER ANALYSIS; DISEASE PROGRESSION; EPITHELIAL CELLS; FEMALE; GENE AMPLIFICATION; GENE EXPRESSION PROFILING; HUMANS; MICRODISSECTION; NEOPLASM INVASIVENESS; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; PROTEIN BIOSYNTHESIS; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; RNA, MESSENGER; RNA, NEOPLASM;

EID: 33744940272     PISSN: 00085472     EISSN: None     Source Type: Journal    
DOI: 10.1158/0008-5472.CAN-05-4610     Document Type: Article

References (47)

1. Allred DC, Mohsin SK, Fuqua SA. Histological and biological evolution of human premalignant breast disease. Endocr Relat Cancer 2001;8:47-61.
2. O'Connell P, Pekkel V, Fuqua SA, Osborne CK, Clark GM, Allred DC. Analysis of loss of heterozygosity in 399 premalignant breast lesions at 15 genetic loci. J Natl Cancer Inst 1998;90:697-703.
3. Porter D, Lahti-Domenici J, Keshaviah A, et al. Molecular markers in ductal carcinoma in situ of the breast. Mol Cancer Res 2003;1:362-75.
4. Lakhani SR, Ashworth A. Microarray and histopathological analysis of tumours: the future and the past? Nat Rev Cancer 2001;1:151-7.
5. Gradishar WJ. The future of breast cancer: the role of prognostic factors. Breast Cancer Res Treat 2005;89 Suppl 1:517-26.
6. Lockhart DJ, Dong H, Byrne MC, et al. Expression monitoring by hybridization to high-density oligonucleotide arrays. Nat Biotechnol 1996;14:1675-80.
7. Sorlie T, Perou CM, Tibshirani R, et al. Gene expression patterns of breast carcinomas distinguish tumor subclasses with clinical implications. Proc Natl Acad Sci U S A 2001;98:10869-74.
8. van't Veer LJ, Dai H, van de Vijver MJ, et al. Gene expression profiling predicts clinical outcome of breast cancer. Nature 2002;415:530-6.
9. Ma XJ, Salunga R, Tuggle JT, et al. Gene expression profiles of human breast cancer progression. Proc Natl Acad Sci U S A 2003;100:5974-9.
10. Luzzi V, Holtschlag V, Watson MA. Expression profiling of ductal carcinoma in situ by laser capture microdissection and high-density oligonucleotide arrays. Am J Pathol 2001;158:2005-10.
11. Nishidate T, Katagiri T, Lin ML, et al. Genome-wide gene-expression profiles of breast-cancer cells purified with laser microbeam microdissection: identification of genes associated with progression and metastasis. Int J Oncol 2004;25:797-819.
12. Tolosa E, Li W, Yasuda Y, et al. Cathepsin V is involved in the degradation of invariant chain in human thymus and is overexpressed in myasthenia gravis. J Clin Invest 2003;112:517-26.
13. Weinschenk T, Gouttefangeas C, Schirle M, et al. Integrated functional genomics approach for the design of patient-individual antitumor vaccines. Cancer Res 2002;62:5818-27.
14. Wulfkuhle JD, Sgroi DC, Krutzsch H, et al. Proteomics of human breast ductal carcinoma in situ. Cancer Res 2002;62:6740-9.
15. DiLella Anthony G. Successful isolation and RT-PCR of RNA from small numbers of laser capture microdissected cells. Qiagen News 2001;4:3-5.
16. Baugh LR, Hill AA, Brown EL, Hunter CP. Quantitative analysis of mRNA amplification by in vitro transcription. Nucleic Acids Res 2001;29:e29.
17. Irizarry RA, Hobbs B, Collin F, et al. Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics 2003;4: 249-64.
18. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987;4:406-25.
19. Breitling R, Armengaud P, Amtmann A, Herzyk P. Rank Products: a simple, yet powerful, new method to detect differentially regulated genes in replicated microarray experiments. FEBS Lett 2004;573:83-92.
20. Pfaffl MW. A new mathematical model for relative quantification in real-time RT-PCR. Nucleic Acids Res 2001;29:e45.
21. Ramakers C, Ruijter JM, Deprez RH, Moorman AF. Assumption-free analysis of quantitative real-time polymerase chain reaction (PCR) data. Neurosci Lett 2003;339:62-6.
22. Herrlinger U, Klingel K, Meyermann R, et al. Central nervous system Hodgkin's lymphoma without systemic manifestation: case report and review of the literature. Acta Neuropathol (Berl) 2000;99:709-14.
23. Jarvinen AK, Hautaniemi S, Edgren H, et al. Are data from different gene expression microarray platforms comparable? Genomics 2004;83:1164-8.
24. Ein-Dor L, Kela I, Getz G, Givol D, Domany E. Outcome signature genes in breast cancer: is there a unique set? [Epub 2004 Aug 12] Bioinformatics 2005;21: 171-8.
25. Mootha VK, Lindgren CM, Eriksson KF, et al. PGC-1α-responsive genes involved in oxidative phosphorylation are coordinately downregulated in human diabetes. Nat Genet 2003;34:267-73.
26. Chung MJ, Jung SH, Lee BJ, Kang MJ, Lee DG. Inactivation of the PTEN gene protein product is associated with the invasiveness and metastasis, but not angiogenesis, of breast cancer. Pathol Int 2004;54: 10-5.
27. Gorbenko O, Kuznetsov V, Kukharenko O, et al. Identification of a novel binding partners for tumor suppressor PTEN by a yeast two-hybrid approach. Eksp Onkol 2004;26:15-9.
28. Lattimore BS, Crabbe MJ. Expression profiles in the progression of ductal carcinoma in the breast. Comput Biol Chem 2003;27:115-20.
29. Grunert S, Jechlinger M, Beug H. Diverse cellular and molecular mechanisms contribute to epithelial plasticity and metastasis. Nat Rev Mol Cell Biol 2003;4:657-65.
30. Yang J, Mani SA, Donaher JL, et al. Twist, a master regulator of morphogenesis, plays an essential role in tumor metastasis. Cell 2004;117:927-39.
31. Jechlinger M, Grunert S, Tamir IH, et al. Expression profiling of epithelial plasticity in tumor progression. Oncogene 2003;22:7155-69.
32. Paik S, Shak S, Tang G, et al. A multigene assay to predict recurrence of tamoxifen-treated, node-negative breast cancer [Epub 2004 Dec 10]. N Engl J Med 2004; 351:2817-26.
33. Andarawewa KL, Motrescu ER, Chenard MP, et al. Stromelysin-3 is a potent negative regulator of adipogenesis participating to cancer cell-adipocyte interaction/crosstalk at the tumor invasive front. Cancer Res 2005;65:10862-71.
34. Harbeck N, Kates RE, Gauger K, et al. Urokinase-type plasminogen activator (uPA) and its inhibitor PAI-I: novel tumor-derived factors with a high prognostic and predictive impact in breast cancer. Thromb Haemost 2004;91:450-6.
35. Reynolds PA, Smolen GA, Palmer RE, et al. Identification of a DNA-binding site and transcriptional target for the EWS-WT1(+KTS) oncoprotein. Genes Dev 2003; 17:2094-107.
36. Bergstraesser LM, Srinivasan G, Jones JC, Stahl S, Weitzman SA. Expression of hemidesmosomes and component proteins is lost by invasive breast cancer cells. Am J Pathol 1995;147:1823-39.
37. Tetu B, Brisson J, Wang CS, Lapointe H, Beaudry G, Blanchette C. Expression of cathepsin D, stromelysin-3, and urokinase by reactive stromal cells on breast carcinoma prognosis. Cancer 2001;92:2957-64.
38. Satoh K, Hata M, Yokota H. High lib mRNA expression in breast carcinomas. DNA Res 2004;11:199-203.
39. Nagaraja GM, Othman M, Fox BP, et al. Gene expression signatures and biomarkers of noninvasive and invasive breast cancer cells: comprehensive profiles by representational difference analysis, microarrays and proteomics. Oncogene 2005. Available from: http:// dx.doi.org/10.1038/sj.onc.1209265.
40. Brott BK, Sokol SY. Frodo proteins: modulators of Wnt signaling in vertebrate development. Differentiation 2005;73:323-9.
41. Brown AM. Wnt signaling in breast cancer: have we come full circle? [Epub 2001 Sep 6] Breast Cancer Res 2001;3:351-5.
42. Hsu DR, Economides AN, Wang X, Eimon PM, Harland RM. The Xenopus dorsalizing factor Gremlin identifies a novel family of secreted proteins that antagonize BMP activities. Mol Cell 1998;1: 673-83.
43. Stitziel NO, Mar BG, Liang J, Westbrook CA. Membrane-associated and secreted genes in breast cancer. Cancer Res 2004;64:8682-7.
44. Laes JF, Quan X, Ravoet M, et al. Analysis of candidate genes included in the mammary cancer susceptibility 1 (Mcs1) region. Mamm Genome 2001; 12:199-206.
45. Milner CM, Day AJ. TSG-6: a multifunctional protein associated with inflammation. J Cell Sci 2003;116: 1863-73.
46. Nakao M, Shichijo S, Imaizumi T, et al. Identification of a gene coding for a new squamous cell carcinoma antigen recognized by the CTL. J Immunol 2000;164:2565-74.
47. Mochizuki K, Sato Y, Tsuda N, et al. Immunological evaluation of vaccination with pre-designated peptides frequently selected as vaccine candidates in an individualized peptide vaccination regimen. Int J Oncol 2004; 25:121-31.