Table of Contents Author Guidelines Submit a Manuscript
BioMed Research International
Volume 2014, Article ID 901428, 9 pages
http://dx.doi.org/10.1155/2014/901428
Research Article

Identification of MicroRNAs as Potential Biomarker for Gastric Cancer by System Biological Analysis

1Department of Gastroenterology, The First Affiliated Hospital of Soochow University, Suzhou 215006, China
2Taicang Center for Translational Bioinformatics Center for Systems Biology, Taicang 215400, China
3Department of Pathology, Soochow University School of Medicine, Suzhou 215123, China
4Center for Systems Biology, Soochow University, No. 1 Shizi Street, Suzhou 215006, China
5School of Chemistry, Biology and Material Engineering, Suzhou University of Science and Technology, Suzhou 215011, China

Received 17 January 2014; Accepted 29 March 2014; Published 28 May 2014

Academic Editor: Degui Zhi

Copyright © 2014 Wenying Yan et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Linked References

  1. J. P. Hamilton and S. J. Meltzer, “A review of the genomics of gastric cancer,” Clinical Gastroenterology and Hepatology, vol. 4, no. 4, pp. 416–425, 2006. View at Publisher · View at Google Scholar
  2. J. Ferlay, H.-R. Shin, F. Bray, D. Forman, C. Mathers, and D. M. Parkin, “Estimates of worldwide burden of cancer in 2008: GLOBOCAN 2008,” International Journal of Cancer, vol. 127, no. 12, pp. 2893–2917, 2010. View at Publisher · View at Google Scholar · View at Scopus
  3. A. Jemal, R. Siegel, E. Ward et al., “Cancer statistics, 2006,” Ca-A Cancer Journal for Clinicians, vol. 56, no. 2, pp. 106–130, 2006. View at Publisher · View at Google Scholar · View at Scopus
  4. R. C. Kurtz and P. Sherlock, “The diagnosis of gastric cancer,” Seminars in Oncology, vol. 12, no. 1, pp. 11–18, 1985. View at Google Scholar · View at Scopus
  5. J. M. Scheiman and A. F. Cutler, “Helicobacter pylori and gastric cancer,” The American Journal of Medicine, vol. 106, no. 2, pp. 222–226, 1999. View at Publisher · View at Google Scholar · View at Scopus
  6. C. M. Fenoglio-Preiser, A. E. Noffsinger, J. Belli, and G. N. Stemmermann, “Pathologic and phenotypic features of gastric cancer,” Seminars in Oncology, vol. 23, no. 3, pp. 292–306, 1996. View at Google Scholar
  7. S. A. Navarro Silvera, S. T. Mayne, H. A. Risch et al., “Principal component analysis of dietary and lifestyle patterns in relation to risk of subtypes of esophageal and gastric cancer,” Annals of Epidemiology, vol. 21, no. 7, pp. 543–550, 2011. View at Publisher · View at Google Scholar · View at Scopus
  8. D. P. Bartel, “MicroRNAs: genomics, biogenesis, mechanism, and function,” Cell, vol. 116, no. 2, pp. 281–297, 2004. View at Publisher · View at Google Scholar · View at Scopus
  9. N. Yanaihara, N. Caplen, E. Bowman et al., “Unique microRNA molecular profiles in lung cancer diagnosis and prognosis,” Cancer Cell, vol. 9, no. 3, pp. 189–198, 2006. View at Publisher · View at Google Scholar · View at Scopus
  10. M. V. Iorio, M. Ferracin, C.-G. Liu et al., “MicroRNA gene expression deregulation in human breast cancer,” Cancer Research, vol. 65, no. 16, pp. 7065–7070, 2005. View at Publisher · View at Google Scholar · View at Scopus
  11. M. Ozen, C. J. Creighton, M. Ozdemir, and M. Ittmann, “Widespread deregulation of microRNA expression in human prostate cancer,” Oncogene, vol. 27, no. 12, pp. 1788–1793, 2008. View at Publisher · View at Google Scholar · View at Scopus
  12. J. L. Wang, Y. Hu, X. Kong et al., “Candidate microRNA biomarkers in human gastric cancer: a systematic review and validation study,” PLoS ONE, vol. 8, no. 9, Article ID e73683, 2013. View at Google Scholar
  13. W. K. K. Wu, C. W. Lee, C. H. Cho et al., “MicroRNA dysregulation in gastric cancer: a new player enters the game,” Oncogene, vol. 29, no. 43, pp. 5761–5771, 2010. View at Publisher · View at Google Scholar · View at Scopus
  14. D. Madhavan, K. Cuk, B. Burwinkel, and R. Yang, “Cancer diagnosis and prognosis decoded by blood-based circulating microRNA signatures,” Frontiers in Genetics, vol. 4, article 116, 2013. View at Publisher · View at Google Scholar
  15. J. Gong, J. Li, Y. Wang et al., “Characterization of microRNA-29 family expression and investigation of their mechanistic roles in gastric cancer,” Carcinogenesis, vol. 35, no. 2, pp. 497–506, 2014. View at Publisher · View at Google Scholar
  16. H. W. Pan, S. C. Li, and K. W. Tsai, “MicroRNA dysregulation in gastric cancer,” Current Pharmaceutical Design, vol. 19, no. 7, pp. 1273–1284, 2013. View at Google Scholar
  17. J. Wang, Q. Wang, H. Liu, B. Hu, W. Zhou, and Y. Cheng, “MicroRNA expression and its implication for the diagnosis and therapeutic strategies of gastric cancer,” Cancer Letters, vol. 297, no. 2, pp. 137–143, 2010. View at Publisher · View at Google Scholar · View at Scopus
  18. Y. H. Kim, H. Liang, X. Liu et al., “AMPKalpha modulation in cancer progression: multilayer integrative analysis of the whole transcriptome in Asian gastric cancer,” Cancer Research, vol. 72, no. 10, pp. 2512–2521, 2012. View at Publisher · View at Google Scholar
  19. Y. Wang and R. Rekaya, “LSOSS: detection of cancer outlier differential gene expression,” Biomarker Insights, vol. 2010, no. 5, pp. 69–78, 2010. View at Google Scholar · View at Scopus
  20. S. Karrila, J. H. E. Lee, and G. Tucker-Kellogg, “A comparison of methods for data-driven cancer outlier discovery, and an application scheme to semisupervised predictive biomarker discovery,” Cancer Informatics, vol. 10, pp. 109–120, 2011. View at Publisher · View at Google Scholar · View at Scopus
  21. W. Zhang, J. Zang, X. Jing et al., “Identification of candidate miRNA biomarkers from miRNA regulatory network with application to prostate cancer,” Journal of Translational Medicine, vol. 12, article 66, 2014. View at Publisher · View at Google Scholar
  22. J. Chen, D. Zhang, W. Zhang et al., “Clear cell renal cell carcinoma associated microRNA expression signatures identified by an integrated bioinformatics analysis,” Journal of Translational Medicine, vol. 11, article 169, 2013. View at Publisher · View at Google Scholar
  23. J. Huang, Z. Sun, W. Yan et al., “Identification of microRNA as sepsis biomarker based on miRNAs regulatory network analysis,” BioMed Research International, vol. 2014, Article ID 594350, 12 pages, 2014. View at Publisher · View at Google Scholar
  24. G. R. Warnes, B. Bolker, L. Bonebakker et al., “gplots: various R 12 programming tools for plotting data,” The Comprehensive R Archive Network. R Package Version 2.6.0, http://cran.r-project.org/package=gplots.
  25. D. W. Huang, B. T. Sherman, and R. A. Lempicki, “Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources,” Nature Protocols, vol. 4, no. 1, pp. 44–57, 2009. View at Publisher · View at Google Scholar · View at Scopus
  26. D. W. Huang, B. T. Sherman, and R. A. Lempicki, “Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists,” Nucleic Acids Research, vol. 37, no. 1, pp. 1–13, 2009. View at Publisher · View at Google Scholar · View at Scopus
  27. A. Sacconi, F. Biagioni, V. Canu et al., “miR-204 targets Bcl-2 expression and enhances responsiveness of gastric cancer,” Cell Death & Disease, vol. 3, aticle e423, 2012. View at Publisher · View at Google Scholar
  28. L. Zhang, X. Wang, and P. Chen, “MiR-204 down regulates SIRT1 and reverts SIRT1-induced epithelial-mesenchymal transition, anoikis resistance and invasion in gastric cancer cells,” BMC Cancer, vol. 13, article 290, 2013. View at Publisher · View at Google Scholar
  29. X. Li, Y. Zhang, Y. Zhang, J. Ding, K. Wu, and D. Fan, “Survival prediction of gastric cancer by a seven-microRNA signature,” Gut, vol. 59, no. 5, pp. 579–585, 2010. View at Publisher · View at Google Scholar · View at Scopus
  30. C. Cai, H. Ashktorab, X. Pang et al., “MicroRNA-211 expression promotes colorectal cancer cell growth in vitro and in vivo by targeting tumor suppressor CHD5,” PLoS ONE, vol. 7, no. 1, Article ID e29750, 2012. View at Publisher · View at Google Scholar · View at Scopus
  31. C. Margue, D. Philippidou, S. E. Reinsbach, M. Schmitt, I. Behrmann, and S. Kreis, “New target genes of MITF-induced microRNA-211 contribute to melanoma cell invasion,” PLoS ONE, vol. 8, no. 9, Article ID e73473, 2013. View at Google Scholar
  32. T. H. Chu, C. C. Yang, C. J. Liu, M. T. Lui, S. C. Lin, and K. W. Chang, “miR-211 promotes the progression of head and neck carcinomas by targeting TGFbetaRII,” Cancer Letters, vol. 337, no. 1, pp. 115–124, 2013. View at Publisher · View at Google Scholar
  33. S. Pizzini, A. Bisognin, S. Mandruzzato et al., “Impact of microRNAs on regulatory networks and pathways in human colorectal carcinogenesis and development of metastasis,” BMC Genomics, vol. 14, article 589, 2013. View at Google Scholar
  34. P. Guo, J. Lan, J. Ge, Q. Nie, Q. Mao, and Y. Qiu, “miR-708 acts as a tumor suppressor in human glioblastoma cells,” Oncology Reports, vol. 30, no. 2, pp. 870–876, 2013. View at Publisher · View at Google Scholar
  35. H. Fayyad-Kazan, N. Bitar, M. Najar et al., “Circulating miR-150 and miR-342 in plasma are novel potential biomarkers for acute myeloid leukemia,” Journal of Translational Medicine, vol. 11, article 31, 2013. View at Publisher · View at Google Scholar
  36. K. Motoyama, H. Inoue, Y. Nakamura, H. Uetake, K. Sugihara, and M. Mori, “Clinical significance of high mobility group A2 in human gastric cancer and its relationship to let-7 MicroRNA family,” Clinical Cancer Research, vol. 14, no. 8, pp. 2334–2340, 2008. View at Publisher · View at Google Scholar · View at Scopus
  37. Y. Tang, W. Yan, J. Chen, C. Luo, A. Kaipia, and B. Shen, “Identification of novel microRNA regulatory pathways associated with heterogeneous prostate cancer,” BMC Systems Biology, vol. 7, no. 3, pp. 1–9, 2013. View at Google Scholar
  38. E. Giovannetti, A. van der Velde, N. Funel et al., “High-throughput microRNA (miRNAs) arrays unravel the prognostic role of MiR-211 in pancreatic cancer,” PLoS ONE, vol. 7, no. 11, Article ID e49145, 2012. View at Google Scholar
  39. J. Yu, A. Li, S. M. Hong, R. H. Hruban, and M. Goggins, “MicroRNA alterations of pancreatic intraepithelial neoplasias,” Clinical Cancer Research, vol. 18, no. 4, pp. 981–992, 2012. View at Publisher · View at Google Scholar
  40. C. Kahlert, F. Klupp, K. Brand et al., “Invasion front-specific expression and prognostic significance of microRNA in colorectal liver metastases,” Cancer Science, vol. 102, no. 10, pp. 1799–1807, 2011. View at Publisher · View at Google Scholar · View at Scopus
  41. K. Sugimura, H. Miyata, K. Tanaka et al., “Let-7 expression is a significant determinant of response to chemotherapy through the regulation of IL-6/STAT3 pathway in esophageal squamous cell carcinoma,” Clinical Cancer Research, vol. 18, no. 18, pp. 5144–5153, 2012. View at Publisher · View at Google Scholar
  42. O. Shinto, M. Yashiro, T. Toyokawa et al., “Phosphorylated Smad2 in advanced stage gastric carcinoma,” BMC Cancer, vol. 10, article 652, 2010. View at Publisher · View at Google Scholar · View at Scopus
  43. M. R. Kano, Y. Bae, C. Iwata et al., “Improvement of cancer-targeting therapy, using nanocarriers for intractable solid tumors by inhibition of TGF-β signaling,” Proceedings of the National Academy of Sciences of the United States of America, vol. 104, no. 9, pp. 3460–3465, 2007. View at Publisher · View at Google Scholar · View at Scopus
  44. L. Mishra, V. Katuri, and S. Evans, “The role of PRAJA and ELF in TGF-beta signaling and gastric cancer,” Cancer Biology & Therapy, vol. 4, no. 7, pp. 694–699, 2005. View at Google Scholar · View at Scopus