Table of Contents Author Guidelines Submit a Manuscript
BioMed Research International
Volume 2014, Article ID 676724, 8 pages
http://dx.doi.org/10.1155/2014/676724
Research Article

Multiple Regression Analysis of mRNA-miRNA Associations in Colorectal Cancer Pathway

1Department of Health Technology and Informatics, The Hong Kong Polytechnic University, Hong Kong
2Department of Clinical Oncology, Queen Elizabeth Hospital, Hong Kong

Received 27 January 2014; Accepted 13 April 2014; Published 7 May 2014

Academic Editor: FangXiang Wu

Copyright © 2014 Fengfeng Wang 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. Z. Huang, D. Huang, S. Ni, Z. Peng, W. Sheng, and X. Du, “Plasma microRNAs are promising novel biomarkers for early detection of colorectal cancer,” International Journal of Cancer, vol. 127, no. 1, pp. 118–126, 2010. View at Publisher · View at Google Scholar · View at Scopus
  2. W. M. Grady, “Genomic instability and colon cancer,” Cancer and Metastasis Reviews, vol. 23, no. 1-2, pp. 11–27, 2004. View at Publisher · View at Google Scholar · View at Scopus
  3. C. C. Pritchard and W. M. Grady, “Colorectal cancer molecular biology moves into clinical practice,” Gut, vol. 60, no. 1, pp. 116–129, 2011. View at Publisher · View at Google Scholar · View at Scopus
  4. K. Söreide, E. A. M. Janssen, H. Söiland, H. Körner, and J. P. A. Baak, “Microsatellite instability in colorectal cancer,” British Journal of Surgery, vol. 93, no. 4, pp. 395–406, 2006. View at Google Scholar
  5. L. Benhaim, M. J. Labonte, and H.-J. Lenz, “Pharmacogenomics and metastatic colorectal cancer: current knowledge and perspectives,” Scandinavian Journal of Gastroenterology, vol. 47, no. 3, pp. 325–339, 2012. View at Publisher · View at Google Scholar · View at Scopus
  6. M. S. Kumar, J. Lu, K. L. Mercer, T. R. Golub, and T. Jacks, “Impaired microRNA processing enhances cellular transformation and tumorigenesis,” Nature Genetics, vol. 39, no. 5, pp. 673–677, 2007. View at Publisher · View at Google Scholar · View at Scopus
  7. K. Seggerson, L. Tang, and E. G. Moss, “Two genetic circuits repress the Caenorhabditis elegans heterochronic gene lin-28 after translation initiation,” Developmental Biology, vol. 243, no. 2, pp. 215–225, 2002. View at Publisher · View at Google Scholar · View at Scopus
  8. L. Wu and J. G. Belasco, “Micro-RNA regulation of the mammalian lin-28 gene during neuronal differentiation of embryonal carcinoma cells,” Molecular and Cellular Biology, vol. 25, no. 21, pp. 9198–9208, 2005. View at Publisher · View at Google Scholar · View at Scopus
  9. S. Bagga, J. Bracht, S. Hunter et al., “Regulation by let-7 and lin-4 miRNAs results in target mRNA degradation,” Cell, vol. 122, no. 4, pp. 553–563, 2005. View at Publisher · View at Google Scholar · View at Scopus
  10. W. C. S. Cho, “MicroRNAs: potential biomarkers for cancer diagnosis, prognosis and targets for therapy,” International Journal of Biochemistry and Cell Biology, vol. 42, no. 8, pp. 1273–1281, 2010. View at Publisher · View at Google Scholar · View at Scopus
  11. W. C. S. Cho, “Epigenetic alteration of microRNAs in feces of colorectal cancer and its clinical significance,” Expert Review of Molecular Diagnostics, vol. 11, no. 7, pp. 691–694, 2011. View at Publisher · View at Google Scholar · View at Scopus
  12. K. Schee, Ø. Fodstad, and K. Flatmark, “MicroRNAs as biomarkers in colorectal cancer,” The American Journal of Pathology, vol. 177, no. 4, pp. 1592–1599, 2010. View at Publisher · View at Google Scholar · View at Scopus
  13. J. Fu, W. Tang, P. Du et al., “Identifying microRNA-mRNA regulatory network in colorectal cancer by a combination of expression profile and bioinformatics analysis,” BMC Systems Biology, vol. 6, article 68, 2012. View at Google Scholar
  14. T. Breslin, M. Krogh, C. Peterson, and C. Troein, “Signal transduction pathway profiling of individual tumor samples,” BMC Bioinformatics, vol. 6, article 163, 2005. View at Publisher · View at Google Scholar · View at Scopus
  15. A. V. Kapp, S. S. Jeffrey, A. Langerød et al., “Discovery and validation of breast cancer subtypes,” BMC Genomics, vol. 7, article 231, 2006. View at Google Scholar
  16. L. W. C. Chan, F. F. Wang, and W. C. S. Cho, “Genomic sequence analysis of EGFR regulation by microRNAs in lung cancer,” Current Topics in Medicinal Chemistry, vol. 12, no. 8, pp. 920–926, 2012. View at Publisher · View at Google Scholar · View at Scopus
  17. L. Li, J. Xu, D. Yang, X. Tan, and H. Wang, “Computational approaches for microRNA studies: a review,” Mammalian Genome, vol. 21, no. 1-2, pp. 1–12, 2010. View at Publisher · View at Google Scholar · View at Scopus
  18. D. Betel, A. Koppal, P. Agius, C. Sander, and C. Leslie, “Comprehensive modeling of microRNA targets predicts functional non-conserved and non-canonical sites,” Genome Biology, vol. 11, no. 8, article R90, 2010. View at Publisher · View at Google Scholar · View at Scopus
  19. L. G. Portney and M. P. Watkins, Foundations of Clinical Research: Applications and Practice, Prentice Hall, Upper Saddle River, NJ, USA, 3rd edition, 2009.
  20. J. D. Storey, “A direct approach to false discovery rates,” Journal of the Royal Statistical Society. Series B: Statistical Methodology, vol. 64, no. 3, pp. 479–498, 2002. View at Publisher · View at Google Scholar · View at Scopus
  21. W. E. Haskins, K. Petritis, and J. Zhang, “MRCQuant- an accurate LC-MS relative isotopic quantification algorithm on TOF instruments,” BMC Bioinformatics, vol. 12, article 74, 2011. View at Publisher · View at Google Scholar · View at Scopus
  22. Y.-P. Wang and K.-B. Li, “Correlation of expression profiles between microRNAs and mRNA targets using NCI-60 data,” BMC Genomics, vol. 10, article 218, 2009. View at Publisher · View at Google Scholar · View at Scopus
  23. S. Ambs, R. L. Prueitt, M. Yi et al., “Genomic profiling of microRNA and messenger RNA reveals deregulated microRNA expression in prostate cancer,” Cancer Research, vol. 68, no. 15, pp. 6162–6170, 2008. View at Publisher · View at Google Scholar · View at Scopus
  24. J. M. Franco-Zorrilla, A. Valli, M. Todesco et al., “Target mimicry provides a new mechanism for regulation of microRNA activity,” Nature Genetics, vol. 39, no. 8, pp. 1033–1037, 2007. View at Publisher · View at Google Scholar · View at Scopus
  25. A. Dursun, A. Poyraz, Ö. Süer, C. Sezer, and G. Akyol, “Expression of Bcl-2 and c-ErbB-2 in colorectal neoplasia,” Pathology and Oncology Research, vol. 7, no. 1, pp. 24–27, 2001. View at Google Scholar · View at Scopus
  26. H. L. De Menezes, M. J. Jucá, E. G. D. A. Gomes, B. L. B. B. P. Nunes, H. O. Costa, and D. Matos, “Analysis of the immunohistochemical expressions of p53, bcl-2 and Ki-67 in colorectal adenocarcinoma and their correlations with the prognostic factors,” Arquivos de Gastroenterologia, vol. 47, no. 2, pp. 141–147, 2010. View at Publisher · View at Google Scholar · View at Scopus
  27. U. Manne, H. L. Weiss, and W. E. Grizzle, “Bcl-2 expression is associated with improved prognosis in patients with colorectal adenocarcinomas,” International Journal of Cancer, vol. 89, no. 5, pp. 423–430, 2000. View at Google Scholar
  28. A. Cimmino, G. A. Calin, M. Fabbri et al., “miR-15 and miR-16 induce apoptosis by targeting BCL2,” Proceedings of the National Academy of Sciences of the United States of America, vol. 102, no. 39, pp. 13944–13949, 2005. View at Publisher · View at Google Scholar · View at Scopus
  29. X. Yu, X. Zhang, I. B. Dhakal, M. Beggs, S. Kadlubar, and D. Luo, “Induction of cell proliferation and survival genes by estradiol-repressed microRNAs in breast cancer cells,” BMC Cancer, vol. 12, article 29, 2012. View at Publisher · View at Google Scholar · View at Scopus
  30. K. De Bosscher, C. S. Hill, and F. J. Nicolás, “Molecular and functional consequences of Smad4 C-terminal missense mutations in colorectal tumour cells,” Biochemical Journal, vol. 379, no. 1, pp. 209–216, 2004. View at Publisher · View at Google Scholar · View at Scopus
  31. W. Xie, D. L. Rimm, Y. Lin, W. J. Shih, and M. Reiss, “Loss of smad signaling in human colorectal cancer is associated with advanced disease and poor prognosis,” Cancer Journal, vol. 9, no. 4, pp. 302–312, 2003. View at Publisher · View at Google Scholar · View at Scopus
  32. T. W. H. Meijer, N. Hoogerbrugge, F. M. Nagengast, M. J. L. Ligtenberg, and J. H. J. M. Van Krieken, “In Lynch syndrome adenomas, loss of mismatch repair proteins is related to an enhanced lymphocytic response,” Histopathology, vol. 55, no. 4, pp. 414–422, 2009. View at Publisher · View at Google Scholar · View at Scopus
  33. Z. Li, Y. Cao, Z. Jie et al., “miR-495 and miR-551a inhibit the migration and invasion of human gastric cancer cells by directly interacting with PRL-3,” Cancer Letters, vol. 323, no. 1, pp. 41–47, 2012. View at Publisher · View at Google Scholar · View at Scopus
  34. Y. Lu, Y. Zhou, W. Qu, M. Deng, and C. Zhang, “A Lasso regression model for the construction of microRNA-target regulatory networks,” Bioinformatics, vol. 27, no. 17, pp. 2406–2413, 2011. View at Publisher · View at Google Scholar · View at Scopus
  35. D. Beck, S. Ayers, J. Wen et al., “Integrative analysis of next generation sequencing for small non-coding RNAs and transcriptional regulation in Myelodysplastic Syndromes,” BMC Medical Genomics, vol. 4, article 19, 2011. View at Publisher · View at Google Scholar · View at Scopus