MicroRNA profiles of prostate carcinoma detected by multiplatform microRNA screening

International Journal of Cancer

Volumn 130, Issue 3, 2012, Pages 611-621

  Wach, Sven ^a,b   Nolte, Elke ^a,b   Szczyrba, Jaroslaw ^c   Stöhr, Robert ^a   Hartmann, Arndt ^a   Ørntoft, Torben ^d   Dyrskjøt, Lars ^d   Eltze, Elke ^e   Wieland, Wolf ^f   Keck, Bastian ^a   Ekici, Arif B ^a   Grässer, Friedrich ^c   Wullich, Bernd ^a  

^a UNIVERSITY OF ERLANGEN NUREMBERG   (Germany)

^b UNIVERSITY OF ERLANGEN NUREMBERG   (Germany)

^c SAARLAND UNIVERSITY   (Germany)

^d AARHUS UNIVERSITY HOSPITAL   (Denmark)

^e UNIVERSITY HOSPITAL MÜNSTER   (Germany)

^f UNIVERSITY HOSPITAL REGENSBURG   (Germany)

Author keywords

gene expression profiling; logistic models; microarray analysis; microRNAs; prostate cancer

Indexed keywords

COMPLEMENTARY DNA; MICRORNA; MICRORNA 143; MICRORNA 145; MICRORNA 375; TUMOR MARKER; UNCLASSIFIED DRUG;

ACCURACY; ADULT; AGED; ARTICLE; CLINICAL ARTICLE; COHORT ANALYSIS; CONTROLLED STUDY; DISEASE MARKER; DNA LIBRARY; DNA SEQUENCE; GENE EXPRESSION; HUMAN; HUMAN TISSUE; IN SITU HYBRIDIZATION; MALE; MICROARRAY ANALYSIS; PRIORITY JOURNAL; PROSTATE CARCINOMA; REAL TIME POLYMERASE CHAIN REACTION; RECEIVER OPERATING CHARACTERISTIC; RNA ANALYSIS; VALIDATION STUDY;

AGED; CARCINOMA; CLUSTER ANALYSIS; EARLY DETECTION OF CANCER; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION, NEOPLASTIC; HUMANS; MALE; MICRORNAS; MIDDLE AGED; NEOPLASM STAGING; PROSTATIC NEOPLASMS; REPRODUCIBILITY OF RESULTS;

EID: 82255163063     PISSN: 00207136     EISSN: 10970215     Source Type: Journal    
DOI: 10.1002/ijc.26064     Document Type: Article

References (50)

1. Lee RC, Feinbaum RL, Ambros V,. The C. elegans heterochronic gene lin-4 encodes small RNAs with antisense complementarity to lin-14. Cell 1993; 75: 843-54. (Pubitemid 24014542)
2. Wightman B, Ha I, Ruvkun G,. Posttranscriptional regulation of the heterochronic gene lin-14 by lin-4 mediates temporal pattern formation in C. elegans. Cell 1993; 75: 855-62. (Pubitemid 24014543)
3. Behm-Ansmant I, Rehwinkel J, Izaurralde E,. MicroRNAs silence gene expression by repressing protein expression and/or by promoting mRNA decay. Cold Spring Harb Symp Quant Biol 2006; 71: 523-30.
4. Giraldez AJ, Mishima Y, Rihel J, Grocock RJ, Van Dongen S, Inoue K, Enright AJ, Schier AF,. Zebrafish MiR-430 promotes deadenylation and clearance of maternal mRNAs. Science 2006; 312: 75-9.
5. Chen PY, Meister G,. microRNA-guided posttranscriptional gene regulation. Biol Chem 2005; 386: 1205-18. (Pubitemid 41790805)
6. Bartel DP,. MicroRNAs: genomics, biogenesis, mechanism, and function. Cell 2004; 116: 281-97.
7. Calin GA, Dumitru CD, Shimizu M, Bichi R, Zupo S, Noch E, Aldler H, Rattan S, Keating M, Rai K, Rassenti L, Kipps T, et al. Frequent deletions and down-regulation of micro- RNA genes miR15 and miR16 at 13q14 in chronic lymphocytic leukemia. Proc Natl Acad Sci USA 2002; 99: 15524-9. (Pubitemid 35403967)
8. Cimmino A, Calin GA, Fabbri M, Iorio MV, Ferracin M, Shimizu M, Wojcik SE, Aqeilan RI, Zupo S, Dono M, Rassenti L, Alder H, et al. miR-15 and miR-16 induce apoptosis by targeting BCL2. Proc Natl Acad Sci USA 2005; 102: 13944-9. (Pubitemid 41377683)
9. Iorio MV, Ferracin M, Liu CG, Veronese A, Spizzo R, Sabbioni S, Magri E, Pedriali M, Fabbri M, Campiglio M, Menard S, Palazzo JP, et al. MicroRNA gene expression deregulation in human breast cancer. Cancer Res 2005; 65: 7065-70. (Pubitemid 41161233)
10. Sempere LF, Christensen M, Silahtaroglu A, Bak M, Heath CV, Schwartz G, Wells W, Kauppinen S, Cole CN,. Altered MicroRNA expression confined to specific epithelial cell subpopulations in breast cancer. Cancer Res 2007; 67: 11612-20.
11. Cummins JM, He Y, Leary RJ, Pagliarini R, Diaz LA Jr, Sjoblom T, Barad O, Bentwich Z, Szafranska AE, Labourier E, Raymond CK, Roberts BS, et al. The colorectal microRNAome. Proc Natl Acad Sci USA 2006; 103: 3687-92. (Pubitemid 43376616)
12. Lee EJ, Gusev Y, Jiang J, Nuovo GJ, Lerner MR, Frankel WL, Morgan DL, Postier RG, Brackett DJ, Schmittgen TD,. Expression profiling identifies microRNA signature in pancreatic cancer. Int J Cancer 2007; 120: 1046-54. (Pubitemid 46214304)
13. Murakami Y, Yasuda T, Saigo K, Urashima T, Toyoda H, Okanoue T, Shimotohno K,. Comprehensive analysis of microRNA expression patterns in hepatocellular carcinoma and non-tumorous tissues. Oncogene 2006; 25: 2537-45.
14. Iorio MV, Visone R, Di Leva G, Donati V, Petrocca F, Casalini P, Taccioli C, Volinia S, Liu CG, Alder H, Calin GA, Menard S, et al. MicroRNA signatures in human ovarian cancer. Cancer Res 2007; 67: 8699-707. (Pubitemid 47437445)
15. Nakajima G, Hayashi K, Xi Y, Kudo K, Uchida K, Takasaki K, Yamamoto M, Ju J,. Non-coding MicroRNAs hsa-let-7g and hsa-miR-181b are associated with chemoresponse to S-1 in colon cancer. Cancer Genomics Proteomics 2006; 3: 317-24. (Pubitemid 44701551)
16. Yanaihara N, Caplen N, Bowman E, Seike M, Kumamoto K, Yi M, Stephens RM, Okamoto A, Yokota J, Tanaka T, Calin GA, Liu CG, et al. Unique microRNA molecular profiles in lung cancer diagnosis and prognosis. Cancer Cell 2006; 9: 189-98. (Pubitemid 43357945)
17. Dyrskjot L, Ostenfeld MS, Bramsen JB, Silahtaroglu AN, Lamy P, Ramanathan R, Fristrup N, Jensen JL, Andersen CL, Zieger K, Kauppinen S, Ulhoi BP, et al. Genomic profiling of microRNAs in bladder cancer: miR-129 is associated with poor outcome and promotes cell death in vitro. Cancer Res 2009; 69: 4851-60.
18. Schetter AJ, Leung SY, Sohn JJ, Zanetti KA, Bowman ED, Yanaihara N, Yuen ST, Chan TL, Kwong DL, Au GK, Liu CG, Calin GA, et al. MicroRNA expression profiles associated with prognosis and therapeutic outcome in colon adenocarcinoma. JAMA 2008; 299: 425-36. (Pubitemid 351185951)
19. Yu SL, Chen HY, Chang GC, Chen CY, Chen HW, Singh S, Cheng CL, Yu CJ, Lee YC, Chen HS, Su TJ, Chiang CC, et al. MicroRNA signature predicts survival and relapse in lung cancer. Cancer Cell 2008; 13: 48-57. (Pubitemid 350309743)
20. Roldo C, Missiaglia E, Hagan JP, Falconi M, Capelli P, Bersani S, Calin GA, Volinia S, Liu CG, Scarpa A, Croce CM,. MicroRNA expression abnormalities in pancreatic endocrine and acinar tumors are associated with distinctive pathologic features and clinical behavior. J Clin Oncol 2006; 24: 4677-84. (Pubitemid 46630931)
21. Ambs S, Prueitt RL, Yi M, Hudson RS, Howe TM, Petrocca F, Wallace TA, Liu CG, Volinia S, Calin GA, Yfantis HG, Stephens RM, et al. Genomic profiling of microRNA and messenger RNA reveals deregulated microRNA expression in prostate cancer. Cancer Res 2008; 68: 6162-70.
22. Porkka KP, Pfeiffer MJ, Waltering KK, Vessella RL, Tammela TL, Visakorpi T,. MicroRNA expression profiling in prostate cancer. Cancer Res 2007; 67: 6130-5. (Pubitemid 47037493)
23. Volinia S, Calin GA, Liu CG, Ambs S, Cimmino A, Petrocca F, Visone R, Iorio M, Roldo C, Ferracin M, Prueitt RL, Yanaihara N, et al. A microRNA expression signature of human solid tumors defines cancer gene targets. Proc Natl Acad Sci USA 2006; 103: 2257-61. (Pubitemid 43271657)
24. Ozen M, Creighton CJ, Ozdemir M, Ittmann M,. Widespread deregulation of microRNA expression in human prostate cancer. Oncogene 2008; 27: 1788-93. (Pubitemid 351380263)
25. Tong AW, Fulgham P, Jay C, Chen P, Khalil I, Liu S, Senzer N, Eklund AC, Han J, Nemunaitis J,. MicroRNA profile analysis of human prostate cancers. Cancer Gene Ther 2009; 16: 206-16.
26. Lu J, Getz G, Miska EA, Alvarez-Saavedra E, Lamb J, Peck D, Sweet-Cordero A, Ebert BL, Mak RH, Ferrando AA, Downing JR, Jacks T, et al. MicroRNA expression profiles classify human cancers. Nature 2005; 435: 834-8. (Pubitemid 40839735)
27. Schaefer A, Jung M, Kristiansen G, Lein M, Schrader M, Miller K, Stephan C, Jung K,. MicroRNAs and cancer: current state and future perspectives in urologic oncology. Urol Oncol 2008; 28: 4-13.
28. Szczyrba J, Loprich E, Wach S, Jung V, Unteregger G, Barth S, Grobholz R, Wieland W, Stohr R, Hartmann A, Wullich B, Grasser F,. The microRNA profile of prostate carcinoma obtained by deep sequencing. Mol Cancer Res 2010; 8: 529-38.
29. Epstein JI, Allsbrook WC Jr, Amin MB, Egevad LL,. The 2005 International Society of Urological Pathology (ISUP) Consensus Conference on Gleason Grading of Prostatic Carcinoma. Am J Surg Pathol 2005; 29: 1228-42. (Pubitemid 41232997)
30. Sobin LH, Wittekind C, eds. TNM classification of malignant tumours, 6th edn. New York: Wiley-Liss, 2002. 264 p.
31. Xi Y, Nakajima G, Gavin E, Morris CG, Kudo K, Hayashi K, Ju J,. Systematic analysis of microRNA expression of RNA extracted from fresh frozen and formalin-fixed paraffin-embedded samples. RNA 2007; 13: 1668-74. (Pubitemid 47481675)
32. Kononen J, Bubendorf L, Kallioniemi A, Barlund M, Schraml P, Leighton S, Torhorst J, Mihatsch MJ, Sauter G, Kallioniemi OP,. Tissue microarrays for high-throughput molecular profiling of tumor specimens. Nat Med 1998; 4: 844-7. (Pubitemid 28331029)
33. Jolliffe IT,. Principal component analysis, 2nd edn. New York: Springer Verlag, 2002. 502 p.
34. Chen C, Ridzon DA, Broomer AJ, Zhou Z, Lee DH, Nguyen JT, Barbisin M, Xu NL, Mahuvakar VR, Andersen MR, Lao KQ, Livak KJ, et al. Real-time quantification of microRNAs by stem-loop RT-PCR. Nucleic Acids Res 2005; 33: e179.
35. Horoszewicz JS, Leong SS, Kawinski E, Karr JP, Rosenthal H, Chu TM, Mirand EA, Murphy GP,. LNCaP model of human prostatic carcinoma. Cancer Res 1983; 43: 1809-18. (Pubitemid 13122588)
36. Schmittgen TD, Livak KJ,. Analyzing real-time PCR data by the comparative C(T) method. Nat Protoc 2008; 3: 1101-8. (Pubitemid 351818697)
37. Nuovo G, Lee EJ, Lawler S, Godlewski J, Schmittgen T,. In situ detection of mature microRNAs by labeled extension on ultramer templates. Biotechniques 2009; 46: 115-26.
38. Schepeler T, Reinert JT, Ostenfeld MS, Christensen LL, Silahtaroglu AN, Dyrskjot L, Wiuf C, Sorensen FJ, Kruhoffer M, Laurberg S, Kauppinen S, Orntoft TF, et al. Diagnostic and prognostic microRNAs in stage II colon cancer. Cancer Res 2008; 68: 6416-24.
39. Hughes C, Murphy A, Martin C, Fox E, Ring M, Sheils O, Loftus B, O'Leary J,. Topoisomerase II-alpha expression increases with increasing Gleason score and with hormone insensitivity in prostate carcinoma. J Clin Pathol 2006; 59: 721-4. (Pubitemid 44048781)
40. True L, Coleman I, Hawley S, Huang CY, Gifford D, Coleman R, Beer TM, Gelmann E, Datta M, Mostaghel E, Knudsen B, Lange P, et al. A molecular correlate to the Gleason grading system for prostate adenocarcinoma. Proc Natl Acad Sci USA 2006; 103: 10991-6. (Pubitemid 44148406)
41. Saeed AI, Bhagabati NK, Braisted JC, Liang W, Sharov V, Howe EA, Li J, Thiagarajan M, White JA, Quackenbush J,. TM4 microarray software suite. Methods Enzymol 2006; 411: 134-93.
42. Bland JM, Altman DG,. Multiple significance tests: the Bonferroni method. BMJ 1995; 310: 170.
43. Storey JD, Tibshirani R,. Statistical significance for genomewide studies. Proc Natl Acad Sci USA 2003; 100: 9440-5. (Pubitemid 37033947)
44. Schaefer A, Jung M, Mollenkopf HJ, Wagner I, Stephan C, Jentzmik F, Miller K, Lein M, Kristiansen G, Jung K,. Diagnostic and prognostic implications of microRNA profiling in prostate carcinoma. Int J Cancer 2009; 126: 1166-76.
45. Avissar M, Christensen BC, Kelsey KT, Marsit CJ,. MicroRNA expression ratio is predictive of head and neck squamous cell carcinoma. Clin Cancer Res 2009; 15: 2850-5.
46. Gordon GJ, Jensen RV, Hsiao LL, Gullans SR, Blumenstock JE, Ramaswamy S, Richards WG, Sugarbaker DJ, Bueno R,. Translation of microarray data into clinically relevant cancer diagnostic tests using gene expression ratios in lung cancer and mesothelioma. Cancer Res 2002; 62: 4963-7. (Pubitemid 34984420)
47. Dunn TA, Chen S, Faith DA, Hicks JL, Platz EA, Chen Y, Ewing CM, Sauvageot J, Isaacs WB, De Marzo AM, Luo J,. A novel role of myosin VI in human prostate cancer. Am J Pathol 2006; 169: 1843-54. (Pubitemid 351182013)
48. Hanke M, Hoefig K, Merz H, Feller AC, Kausch I, Jocham D, Warnecke JM, Sczakiel G,. A robust methodology to study urine microRNA as tumor marker: microRNA-126 and microRNA-182 are related to urinary bladder cancer. Urol Oncol 2009.
49. Mitchell PS, Parkin RK, Kroh EM, Fritz BR, Wyman SK, Pogosova-Agadjanyan EL, Peterson A, Noteboom J, O'Briant KC, Allen A, Lin DW, Urban N, et al. Circulating microRNAs as stable blood-based markers for cancer detection. Proc Natl Acad Sci USA 2008; 105: 10513-8.
50. Papadopoulos GL, Alexiou P, Maragkakis M, Reczko M, Hatzigeorgiou AG,. DIANA-mirPath: Integrating human and mouse microRNAs in pathways. Bioinformatics 2009; 25: 1991-3.