Research on the typical miRNA and target genes in squamous cell carcinoma and adenocarcinoma of esophagus cancer with DNA microarray

Pathology and Oncology Research

Volumn 20, Issue 2, 2014, Pages 245-252

  Wang, Hong Bin ^a   Jiang, Zhi Biao ^b   Li, Min ^a  

^a SHANGHAI JIAO TONG UNIVERSITY   (China)

^b SOUTHERN MEDICAL UNIVERSITY   (China)

Author keywords

Differentially expressed miRNA; Esophageal cancer; Function and pathway enrichment analysis; Target genes interaction network

Indexed keywords

DNA; MICRORNA; MICRORNA 203; MICRORNA 21; TUMOR MARKER; UNCLASSIFIED DRUG; TRANSCRIPTOME;

ARTICLE; CELL CYCLE G1 PHASE; CELL CYCLE S PHASE; CONTROLLED STUDY; DNA MICROARRAY; ESOPHAGEAL ADENOCARCINOMA; ESOPHAGEAL SQUAMOUS CELL CARCINOMA; GENE EXPRESSION; GENE EXPRESSION PROFILING; GENE FUNCTION; GENE INTERACTION; GENE TARGETING; GENETIC SCREENING; HUMAN; HUMAN TISSUE; MAJOR CLINICAL STUDY; NUCLEOTIDE SEQUENCE; ADENOCARCINOMA; COMPUTER PROGRAM; DOWN REGULATION; ESOPHAGUS TUMOR; G1 PHASE CELL CYCLE CHECKPOINT; GENE EXPRESSION REGULATION; GENETICS; MICROARRAY ANALYSIS; PROCEDURES; SQUAMOUS CELL CARCINOMA; UPREGULATION;

ADENOCARCINOMA; CARCINOMA, SQUAMOUS CELL; DOWN-REGULATION; ESOPHAGEAL NEOPLASMS; G1 PHASE CELL CYCLE CHECKPOINTS; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION, NEOPLASTIC; HUMANS; MICROARRAY ANALYSIS; MICRORNAS; SOFTWARE; TRANSCRIPTOME; UP-REGULATION;

EID: 84898820174     PISSN: 12194956     EISSN: 15322807     Source Type: Journal    
DOI: 10.1007/s12253-013-9688-z     Document Type: Article

References (40)

1. Enzinger PC, Mayer RJ (2003) Esophageal cancer. N Engl J Med 349(23):2241-2252
2. Mathé EA, Nguyen GH, Bowman ED, Zhao Y, Budhu A, Schetter AJ, Braun R, Reimers M, Kumamoto K, Hughes D (2009) MicroRNA expression in squamous cell carcinoma and adenocarcinoma of the esophagus: associations with survival. Clin Cancer Res 15(19):6192-6200
3. Enzinger PC, Mayer RJ (2008) Oesophageal cancer. In: Baert A (ed) Encyclopedia of diagnostic imaging. Springer, Berlin, pp 1401-1401. doi: 10.1007/978-3-540-35280-8-1772
4. Jemal A, Bray F, Center MM, Ferlay J, Ward E, Forman D (2011) Global cancer statistics. CA Cancer J Clin 61(2):69-90
5. Bartel DP (2004) MicroRNAs: genomics, biogenesis, mechanism, and function. Cell 116(2):281-297. doi: 10.1016/S0092-8674(04)00045-5
6. Zhao Y, Srivastava D (2007) A developmental view of microRNA function. Trends Biochem Sci 32(4):189
7. Zhang B, Pan X, Cobb GP, Anderson TA (2007) microRNAs as oncogenes and tumor suppressors. Dev Biol 302(1):1-12
8. Feber A, Xi L, Luketich JD, Pennathur A, Landreneau RJ, Wu M, Swanson SJ, Godfrey TE, Litle VR (2008) MicroRNA expression profiles of esophageal cancer. J Thorac Cardiovasc Surg 135(2):255-260
9. Ye Y, Wang KK, Gu J, Yang H, Lin J, Ajani JA, Wu X (2008) Genetic variations in microRNA-related genes are novel susceptibility loci for esophageal cancer risk. Cancer Prev Res 1(6):460-469
10. Yang M, Liu R, Sheng J, Liao J, Wang Y, Pan E, Guo W, Pu Y, Yin L (2013) Differential expression profiles of microRNAs as potential biomarkers for the early diagnosis of esophageal squamous cell carcinoma. Oncol Rep 29(1):169-176
11. Hiyoshi Y, Kamohara H, Karashima R, Sato N, Imamura Y, Nagai Y, Yoshida N, Toyama E, Hayashi N, Watanabe M (2009) MicroRNA-21 regulates the proliferation and invasion in esophageal squamous cell carcinoma. Clin Cancer Res 15(6):1915-1922
12. Kano M, Seki N, Kikkawa N, Fujimura L, Hoshino I, Akutsu Y, Chiyomaru T, Enokida H, Nakagawa M, Matsubara H (2010) miR-145, miR-133a and miR-133b: tumor-suppressive miRNAs target FSCN1 in esophageal squamous cell carcinoma. Int J Cancer 127(12):2804-2814
13. Sonkoly E, Wei T, Loriè EP, Suzuki H, Kato M, Törmä H, Ståhle M, Pivarcsi A (2009) Protein kinase C-dependent upregulation of miR-203 induces the differentiation of human keratinocytes. J Investig Dermatol 130(1):124-134
14. Troyanskaya O, Cantor M, Sherlock G, Brown P, Hastie T, Tibshirani R, Botstein D, Altman RB (2001) Missing value estimation methods for DNA microarrays. Bioinformatics 17(6):520-525
15. Fujita A, Sato J, Rodrigues L, Ferreira C, Sogayar M (2006) Evaluating different methods of microarray data normalization. BMC Bioinforma 7(1):469
16. Gentleman R, Carey V, Huber W, Irizarry R, Dudoit S (2005) Bioinformatics and computational biology solutions using R and Bioconductor, vol 746718470. Springer, New York
17. Benjamini Y, Hochberg Y (1995) Controlling the false discovery rate: a practical and powerful approach to multiple testing. J R Stat Soc Ser B (Methodological) 289-300
18. Xiao F, Zuo Z, Cai G, Kang S, Gao X, Li T (2009) miRecords: an integrated resource for microRNA-target interactions. Nucleic Acids Res 37(suppl 1):D105-D110
19. Hsu S-D, Lin F-M, Wu W-Y, Liang C, Huang W-C, Chan W-L, Tsai W-T, Chen G-Z, Lee C-J, Chiu C-M (2011) miRTarBase: a database curates experimentally validated microRNA-target interactions. Nucleic Acids Res 39(suppl 1):D163-D169
20. Li S, Armstrong CM, Bertin N, Ge H, Milstein S, Boxem M, Vidalain P-O, Han J-DJ, Chesneau A, Hao T (2004) A map of the interactome network of the metazoan C. elegans. Sci Signal 303(5657):540
21. Szklarczyk D, Franceschini A, Kuhn M, Simonovic M, Roth A, Minguez P, Doerks T, Stark M, Muller J, Bork P (2011) The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored. Nucleic Acids Res 39(suppl 1):D561-D568
22. Nam D, Kim S-Y (2008) Gene-set approach for expression pattern analysis. Brief Bioinform 9(3):189-197
23. Zhang B, Kirov S, Snoddy J (2005) WebGestalt: an integrated system for exploring gene sets in various biological contexts. Nucleic Acids Res 33(suppl 2):W741-W748
24. Duncan D, Prodduturi N, Zhang B (2010) WebGestalt2: an updated and expanded version of the Web-based Gene Set Analysis Toolkit. BMC Bioinforma 11(Suppl 4):P10
25. Ec L (2002) MicroRNAs are complementary to 3′UTR sequence motifs that mediate negative post-transcriptional regulation. Nat Genet 30(4):363-364
26. Fassan M, Realdon S, Pizzi M, Balistreri M, Battaglia G, Zaninotto G, Ancona E, Rugge M (2012) Programmed cell death 4 nuclear loss and miR-21 or activated Akt overexpression in esophageal squamous cell carcinogenesis. Dis Esophagus 25(3):263-268
27. Zhang J-g, Wang J-j, Zhao F, Liu Q, Jiang K, Yang G-h (2010) MicroRNA-21 (miR-21) represses tumor suppressor PTEN and promotes growth and invasion in non-small cell lung cancer (NSCLC). Clin Chim Acta 11-12:846-852. doi: 10.1016/j.cca.2010.02.074
28. Xiong B, Cheng Y, Ma L, Zhang C (2013) MiR-21 regulates biological behavior through the PTEN/PI-3 K/Akt signaling pathway in human colorectal cancer cells. Int J Oncol 42(1):219-228
29. Y-a Z, Zhang T, Zhao J-B, X-p W, Jiang T, Gu Z-P, X-n W, X-f L (2010) The adenovirus-mediated transfer of PTEN inhibits the growth of esophageal cancer cells in vitro and in vivo. Biosci Biotechnol Biochem 74(4):736-740
30. Yuan T, Cantley L (2008) PI3K pathway alterations in cancer: variations on a theme. Oncogene 27(41):5497-5510
31. Ofir M, Ben-Shachar B, Hacohen D, Ginsberg D (2012) Abstract A17: MiR-15, miR-16 and miR-21 are direct transcriptional targets of E2F1 that limit E2F-induced proliferation and apoptosis. Cancer Res 72(2 Supplement):A17-A17
32. Schuldt A (2011) Cell cycle: E2F1 ensures the endocycle. Nat Rev Mol Cell Biol 12(12):768-769
33. Furuta M, K-i K, Tanaka S, Arii S, Imoto I, Inazawa J (2010) miR-124 and miR-203 are epigenetically silenced tumor-suppressive microRNAs in hepatocellular carcinoma. Carcinogenesis 31(5):766-776
34. Bian K, Fan J, Zhang X, Yang X-W, Zhu H-Y, Wang L, Sun J-Y, Meng Y-L, Cui P-C, Cheng S-Y (2012) MicroRNA-203 leads to G1 phase cell cycle arrest in laryngeal carcinoma cells by directly targeting survivin. FEBS Lett 586(6):804-809
35. Bueno MJ, Pérez de Castro I, Gómez de Cedrón M, Santos J, Calin GA, Cigudosa Juan C, Croce CM, Fernández-Piqueras J, Malumbres M (2008) Genetic and epigenetic silencing of MicroRNA-203 enhances ABL1 and BCR-ABL1 oncogene expression. Cancer Cell 13(6):496-506. doi: 10.1016/j.ccr.2008.04.018
36. Cunningham J, Vierkant R, Sellers T, Phelan C, Rider D, Liebow M, Schildkraut J, Berchuck A, Couch F, Wang X (2009) Cell cycle genes and ovarian cancer susceptibility: a tagSNP analysis. Br J Cancer 101(8):1461-1468
37. Lena A, Shalom-Feuerstein R, di Val Cervo PR, Aberdam D, Knight R, Melino G, Candi E (2008) miR-203 represses 'stemness' by repressing ΔNp63. Cell Death Differ 15(7):1187-1195
38. Lau CPY, Ng PKS, Li MS, Tsui SKW, Huang L, Kumta SM (2013) p63 regulates cell proliferation and cell cycle progression-associated genes in stromal cells of giant cell tumor of the bone. Int J Oncol 42(2):437
39. Mishina T, Dosaka-Akita H, Hommura F, Nishi M, Kojima T, Ogura S, Shimizu M, Katoh H, Kawakami Y (2000) Cyclin E expression, a potential prognostic marker for non-small cell lung cancers. Clin Cancer Res 6(1):11-16
40. Blagosklonny MV, Pardee AB (2001) Exploiting cancer cell cycling for selective protection of normal cells. Cancer Res 61(11):4301-4305