Table of Contents Author Guidelines Submit a Manuscript
Gastroenterology Research and Practice
Volume 2016, Article ID 2968106, 11 pages
http://dx.doi.org/10.1155/2016/2968106
Research Article

Identification of the Key Genes and Pathways in Esophageal Carcinoma

Department of Thoracic Surgery, The Fourth Hospital of Hebei Medical University, Shijiazhuang 050011, China

Received 28 March 2016; Revised 1 July 2016; Accepted 11 July 2016

Academic Editor: Robert Odze

Copyright © 2016 Peng Su 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. R. Siegel, D. Naishadham, and A. Jemal, “Cancer statistics, 2012,” CA: A Cancer Journal for Clinicians, vol. 62, no. 1, pp. 10–29, 2012. View at Publisher · View at Google Scholar · View at Scopus
  2. P. C. Enzinger and R. J. Mayer, “Esophageal cancer,” The New England Journal of Medicine, vol. 349, no. 23, pp. 2241–2252, 2003. View at Publisher · View at Google Scholar · View at Scopus
  3. W. Chen, R. Zheng, P. D. Baade et al., “Cancer statistics in China, 2015,” CA: A Cancer Journal for Clinicians, vol. 66, no. 2, pp. 115–132, 2016. View at Publisher · View at Google Scholar
  4. M. J. D. Arnal, Á. F. Arenas, and Á. L. Arbeloa, “Esophageal cancer: risk factors, screening and endoscopic treatment in Western and Eastern countries,” World Journal of Gastroenterology, vol. 21, no. 26, pp. 7933–7943, 2015. View at Publisher · View at Google Scholar · View at Scopus
  5. X. Song, W. You, J. Zhu et al., “A genetic variant in miRNA-219-1 is associated with risk of esophageal squamous cell carcinoma in Chinese Kazakhs,” Disease Markers, vol. 2015, Article ID 541531, 10 pages, 2015. View at Publisher · View at Google Scholar · View at Scopus
  6. B. Ye, C.-Y. Ji, Y. Zhao, W. Li, J. Feng, and X. Zhang, “Single nucleotide polymorphism at alcohol dehydrogenase-1B is associated with risk of esophageal squamous cell carcinoma,” Cancer Cell International, vol. 14, no. 1, article 12, 2014. View at Publisher · View at Google Scholar · View at Scopus
  7. H. Meng, K. Wang, X. Chen et al., “MicroRNA-330-3p functions as an oncogene in human esophageal cancer by targeting programmed cell death 4,” American Journal of Cancer Research, vol. 5, no. 3, pp. 1062–1075, 2015. View at Google Scholar
  8. K. A. Byrnes, P. Phatak, D. Mansour et al., “Overexpression of miR-199a-5p decreases esophageal cancer cell proliferation through repression of mitogen-activated protein kinase kinase kinase-11 (MAP3K11),” Oncotarget, vol. 7, no. 8, pp. 8756–8770, 2016. View at Google Scholar
  9. M. Zhang, E. Linghu, Q. Zhan et al., “Methylation of DACT2 accelerates esophageal cancer development by activating Wnt signaling,” Oncotarget, vol. 7, no. 14, pp. 17957–17969, 2016. View at Publisher · View at Google Scholar
  10. Y. Wang, X. Qin, J. Wu et al., “Association of promoter methylation of RUNX3 gene with the development of esophageal cancer: a meta analysis,” PLoS ONE, vol. 9, no. 9, Article ID e107598, 2014. View at Publisher · View at Google Scholar · View at Scopus
  11. L. Gautier, L. Cope, B. M. Bolstad, and R. A. Irizarry, “Affy—analysis of Affymetrix GeneChip data at the probe level,” Bioinformatics, vol. 20, no. 3, pp. 307–315, 2004. View at Publisher · View at Google Scholar · View at Scopus
  12. G. K. Smyth, “Limma: linear models for microarray data,” in Bioinformatics and Computational Biology Solutions Using R and Bioconductor, pp. 397–420, Springer, 2005. View at Google Scholar
  13. Y. Benjamini and Y. Hochberg, “Controlling the false discovery rate: a practical and powerful approach to multiple testing,” Journal of the Royal Statistical Society, Series B: Methodological, vol. 57, no. 1, pp. 289–300, 1995. View at Google Scholar · View at MathSciNet
  14. M. Ashburner, C. A. Ball, J. A. Blake et al., “Gene ontology: tool for the unification of biology,” Nature Genetics, vol. 25, no. 1, pp. 25–29, 2000. View at Publisher · View at Google Scholar · View at Scopus
  15. W. G. Alvord, J. Roayaei, R. Stephens et al., “The DAVID gene functional classification tool: a novel biological module-centric algorithm to functionally analyze large gene lists,” Genome Biology, vol. 8, no. 9, article R183, 2007. View at Publisher · View at Google Scholar · View at Scopus
  16. M. Kanehisa, M. Araki, S. Goto et al., “KEGG for linking genomes to life and the environment,” Nucleic Acids Research, vol. 36, supplement 1, pp. D480–D484, 2008. View at Publisher · View at Google Scholar · View at Scopus
  17. P. Shannon, A. Markiel, O. Ozier et al., “Cytoscape: a software environment for integrated models of biomolecular interaction networks,” Genome Research, vol. 13, no. 11, pp. 2498–2504, 2003. View at Publisher · View at Google Scholar · View at Scopus
  18. A. Chatr-Aryamontri, B.-J. Breitkreutz, R. Oughtred et al., “The BioGRID interaction database: 2015 update,” Nucleic Acids Research, vol. 43, no. 1, pp. D470–D478, 2015. View at Publisher · View at Google Scholar · View at Scopus
  19. T. D. Schmittgen and K. J. Livak, “Analyzing real-time PCR data by the comparative CT method,” Nature Protocols, vol. 3, no. 6, pp. 1101–1108, 2008. View at Publisher · View at Google Scholar · View at Scopus
  20. T. Feng, F. Shao, Q. Wu et al., “miR-124 downregulation leads to breast cancer progression via LncRNA-MALAT1 regulation and CDK4/E2F1 signal activation,” Oncotarget, vol. 7, no. 13, pp. 16205–16216, 2016. View at Publisher · View at Google Scholar
  21. L. Yan, Y. Wang, Z.-Z. Wang et al., “Cell motility and spreading promoted by CEACAM6 through cyclin D1/CDK4 in human pancreatic carcinoma,” Oncology Reports, vol. 35, no. 1, pp. 418–426, 2016. View at Publisher · View at Google Scholar · View at Scopus
  22. H. Xiao, J. Zeng, H. Li et al., “MiR-1 downregulation correlates with poor survival in clear cell renal cell carcinoma where it interferes with cell cycle regulation and metastasis,” Oncotarget, vol. 6, no. 15, pp. 13201–13215, 2015. View at Publisher · View at Google Scholar · View at Scopus
  23. J. Wang, S. Yu, L. Cui et al., “Role of SMC1A overexpression as a predictor of poor prognosis in late stage colorectal cancer,” BMC Cancer, vol. 15, no. 1, article 90, 2015. View at Publisher · View at Google Scholar · View at Scopus
  24. T. Feng, D. Xu, C. Tu et al., “miR-124 inhibits cell proliferation in breast cancer through downregulation of CDK4,” Tumor Biology, vol. 36, no. 8, pp. 5987–5997, 2015. View at Publisher · View at Google Scholar · View at Scopus
  25. Y. Zhang, Y. Wang, Y. Wei et al., “Molecular chaperone CCT3 supports proper mitotic progression and cell proliferation in hepatocellular carcinoma cells,” Cancer Letters, vol. 372, no. 1, pp. 101–109, 2016. View at Publisher · View at Google Scholar · View at Scopus
  26. X. Cui, Z.-P. Hu, Z. Li, P.-J. Gao, and J.-Y. Zhu, “Overexpression of chaperonin containing TCP1, subunit 3 predicts poor prognosis in hepatocellular carcinoma,” World Journal of Gastroenterology, vol. 21, no. 28, pp. 8588–8604, 2015. View at Publisher · View at Google Scholar · View at Scopus
  27. Z. Pénzváltó, A. Lánczky, J. Lénárt et al., “MEK1 is associated with carboplatin resistance and is a prognostic biomarker in epithelial ovarian cancer,” BMC Cancer, vol. 14, no. 1, 2014. View at Publisher · View at Google Scholar
  28. Y. Shi, X. Deng, Q. Zhan et al., “A prospective proteomic-based study for identifying potential biomarkers for the diagnosis of cholangiocarcinoma,” Journal of Gastrointestinal Surgery, vol. 17, no. 9, pp. 1584–1591, 2013. View at Publisher · View at Google Scholar · View at Scopus
  29. J. Ma, X. Hou, M. Li et al., “Genome-wide methylation profiling reveals new biomarkers for prognosis prediction of glioblastoma,” Journal of Cancer Research and Therapeutics, vol. 11, no. 6, pp. 212–215, 2015. View at Publisher · View at Google Scholar · View at Scopus
  30. H. Cohen, R. Ben-Hamo, M. Gidoni et al., “Shift in GATA3 functions, and GATA3 mutations, control progression and clinical presentation in breast cancer,” Breast Cancer Research, vol. 16, no. 6, article 464, 2014. View at Publisher · View at Google Scholar
  31. Y. Su, J. Wang, X. Zhang et al., “Targeting SIM2-s decreases glioma cell invasion through mesenchymal–epithelial transition,” Journal of Cellular Biochemistry, vol. 115, no. 11, pp. 1900–1907, 2014. View at Publisher · View at Google Scholar · View at Scopus
  32. Y. Su, Q. He, L. Deng et al., “MiR-200a impairs glioma cell growth, migration, and invasion by targeting SIM2-s,” NeuroReport, vol. 25, no. 1, pp. 12–17, 2014. View at Publisher · View at Google Scholar · View at Scopus
  33. W. H. Xiao, X. L. Qu, X. M. Li et al., “Identification of commonly dysregulated genes in colorectal cancer by integrating analysis of RNA-Seq data and qRT-PCR validation,” Cancer Gene Therapy, vol. 22, no. 5, pp. 278–284, 2015. View at Publisher · View at Google Scholar · View at Scopus
  34. B. Laffin, E. Wellberg, H.-I. Kwak et al., “Loss of singleminded-2s in the mouse mammary gland induces an epithelial-mesenchymal transition associated with up-regulation of slug and matrix metalloprotease 2,” Molecular and Cellular Biology, vol. 28, no. 6, pp. 1936–1946, 2008. View at Publisher · View at Google Scholar · View at Scopus
  35. M. Komatsu and H. Sasaki, “DNA methylation is a key factor in understanding differentiation phenotype in esophageal squamous cell carcinoma,” Epigenomics, vol. 6, no. 6, pp. 567–569, 2014. View at Publisher · View at Google Scholar · View at Scopus
  36. H.-I. Kwak, T. Gustafson, R. P. Metz, B. Laffin, P. Schedin, and W. W. Porter, “Inhibition of breast cancer growth and invasion by single-minded 2s,” Carcinogenesis, vol. 28, no. 2, pp. 259–266, 2007. View at Publisher · View at Google Scholar · View at Scopus
  37. C. Rosenberg, E. Geelen, M. J. IJszenga et al., “Spectrum of genetic changes in gastro-esophageal cancer cell lines determined by an integrated molecular cytogenetic approach,” Cancer Genetics and Cytogenetics, vol. 135, no. 1, pp. 35–41, 2002. View at Publisher · View at Google Scholar · View at Scopus
  38. B. Albrecht, M. Hausmann, H. Zitzelsberger et al., “Array-based comparative genomic hybridization for the detection of DNA sequence copy number changes in Barrett's adenocarcinoma,” The Journal of Pathology, vol. 203, no. 3, pp. 780–788, 2004. View at Publisher · View at Google Scholar · View at Scopus
  39. S. Komatsu, I. Imoto, H. Tsuda et al., “Overexpression of SMYD2 relates to tumor cell proliferation and malignant outcome of esophageal squamous cell carcinoma,” Carcinogenesis, vol. 30, no. 7, pp. 1139–1146, 2009. View at Publisher · View at Google Scholar · View at Scopus
  40. C. Fan, L. Chen, Q. Huang et al., “Overexpression of major CDKN3 transcripts is associated with poor survival in lung adenocarcinoma,” British Journal of Cancer, vol. 113, no. 12, pp. 1735–1743, 2015. View at Publisher · View at Google Scholar · View at Scopus
  41. T. Li, H. Xue, Y. Guo, and K. Guo, “CDKN3 is an independent prognostic factor and promotes ovarian carcinoma cell proliferation in ovarian cancer,” Oncology Reports, vol. 31, no. 4, pp. 1825–1831, 2014. View at Publisher · View at Google Scholar · View at Scopus
  42. J. Li, Z. Chen, L. Tian et al., “LncRNA profile study reveals a three-lncRNA signature associated with the survival of patients with oesophageal squamous cell carcinoma,” Gut, vol. 63, no. 11, pp. 1700–1710, 2014. View at Publisher · View at Google Scholar · View at Scopus
  43. K. Chen, Y. Li, Y. Dai et al., “Characterization of tumor suppressive function of cornulin in esophageal squamous cell carcinoma,” PLoS ONE, vol. 8, no. 7, Article ID e68838, 2013. View at Publisher · View at Google Scholar · View at Scopus
  44. A. Long, V. Giroux, K. A. Whelan et al., “WNT10A promotes an invasive and self-renewing phenotype in esophageal squamous cell carcinoma,” Carcinogenesis, vol. 36, no. 5, pp. 598–606, 2015. View at Publisher · View at Google Scholar · View at Scopus
  45. T. Shimokuni, K. Tanimoto, K. Hiyama et al., “Chemosensitivity prediction in esophageal squamous cell carcinoma: novel marker genes and efficacy-prediction formulae using their expression data,” International Journal of Oncology, vol. 28, no. 5, pp. 1153–1162, 2006. View at Google Scholar · View at Scopus
  46. B. P. Mello, E. F. Abrantes, C. H. Torres et al., “No-match ORESTES explored as tumor markers,” Nucleic Acids Research, vol. 37, no. 8, pp. 2607–2617, 2009. View at Publisher · View at Google Scholar · View at Scopus