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Gene Expression in Gastric Cancer for Singapore and UK Population: An Insilico Comparative Approach

Author Affiliations

  • 1Department of Bioinformatics, Karunya University, Coimbatore , Tamilnadu, INDIA
  • 2Department Biotechnology, Karunya University, Coimbatore, Tamilnadu, INDIA

Res. J. Recent Sci., Volume 3, Issue (ISC-2013), Pages 295-301, (2014)

Abstract

Gastric adenocarcinoma is a common cancer of the digestive tract in worldwide. It occurs in men above the age of 40. This cancer is common in Asia, parts of South America, and eastern and central Europe. And it accounts for 800,000 deaths worldwide per year. Prognosis is poor due to the late detection at its advanced stage. Gene expression analysis was done for Singapore and UK Gastric cancer datasets using GeneSpring. Differentially expressed Gastric cancer Stage 1 genes were identified by performing a t-test with a p-value cutoff of 0.005 and fold change ≥ 2.Only the differentially expressed genes that satisfied the criteria was enriched to find the functional insight of the stage 1 genes in Gastric cancer. The enriched genes were analyzed for their gene ontology using a Cytoscape plug-in Bingo. Molecular interactions among the stage 1 genes were done using a Cytoscape plug-in MiMI. hnRNPC gene showed a good interaction with its neighbouring genes. SNP regions in hnRNPC gene were identified and two of them were found to be located in the promoter region. hnRNPC gene interacts with Grb 2 gene in the progression of Gastric cancer. Majority of SNPs are located in the promoter regions for Gastric cancers from Singapore and USA, it can be suggested as one of the prime reasons for its up regulation in Gastric cancer. Thus hnRNPC be gene can be used as a potential marker in the early diagnosis of Gastric cancer in Homo sapiens.

References

  1. Gao Y., Hu N., Han X.Y., Ding T. and Giffen C., Risk factors for esophagel and gastric cancers in Shanxi Province, China: A case-control study, Cancer Epidemiology,35, 9199 (2011)
  2. Ferlay J., Shin H.R., Bray F., Forman D., Mathers C. and Parkin D.M., Cancer Incidence and Mortality Worldwide, Globocan,12,184-187 (2010)
  3. Gajalakshmi V., Swaminathan R. and Shanta V., An Independent Survey to Assess Completeness of Registration: Population Based Cancer Registry, Chennai, India, Asian Pacific Journal Cancer Prevention,2, 179-183 (2001)
  4. Mathew A., Gangadhara P., Varghese C. and Nair M.K., Diet and Gastric Cancer: a case-control study in South India, European Journal of Cancer Prevention, 89-97 (2000)
  5. Gomes L.I., Waleska K., Adriane P., Fernando A., Gustavo H. and Reis L.F., Expression profile of malignant and non-malignant lesions of oesophagus and stomach: differential activity of functional modules related to inflammation and lipid metabolism, Cancer research,65, 1087-1231(2003)
  6. Maere S., Heymans K. and Kuiper M., BiNGO: a Cytoscape plugin to assess overrepresentation of gene ontology categories in biological networks, Bioinformatics,21, 3448-3449 (2005)
  7. Jing G., Alex S., Ade V., Glenn T., Terry E.W., Barbara R., Mirel H.V., Jagadish I. and David J., States Integrating and Annotating the Interactome using the MiMI plugin for Cytoscape, Bioinformatics,25, 137-138 (2009)
  8. Drabovich A.P. and Krylov S.N., Identification of base pairs in single-nucleotide polymorphisms by MutS protein-mediated capillary electrophoresis, Analytical Chemistry,78, 2035-2038 (2006)
  9. Goodman S.N., Toward Evidence-Based Medical Statistics. 1: The P Value Fallacy, Annals of Internal Medicine, 130, 9951004 (1999)
  10. Benjamini Y. and Hochberg Y.F., Controlling the false discovery rate: a practical and powerful approach to multiple testing, Journal of the Royal Statistical Society, 57, 289300 (1995)
  11. Yadav A., Jain D.K. and Kumar C., Preparation and characterization of microparticulate system of propranolol hydrochloride, Journal of Drug Delivery and Therapeutics,,15-20 (2011)
  12. Malik M.A., Upadhyay R., Mittal R.D., Zargar S.A., Modi D.R. and Mittal B., Role of xenobiotic-metabolizing enzyme gene polymorphisms and interactions with environmental factors in susceptibility to gastric cancer in Kashmir Valley, Gastrointestinal Cancer,40, 2632 (2009)
  13. Gonzalez C.A., Sala N. and Capella G., Genetic susceptibility and gastric cancer risk, International Journal of cancer, 100, 249-260 (2002)
  14. Kumar C., Jain DK. and Yadav A., Preparation and characterization of microparticulate system of propranolol hydrochloride, Journal of Drug Delivery and Therapeutics, 2, 15-20 (2011)
  15. Dey S., Stalin S., Gupta A., Saha D. and Kesh K., Matrix metalloproteinase3 gene promoter polymorphisms and their haplotypes are associated with gastric cancer risk in eastern Indian population, Molecular Carcinogenesis, 51, 4253 (2011)
  16. Moorchung N., Srivastava AN., Gupta NK., Achyut BR. and Mittal B., The Histopathology of Chronic gastritis, Indian Journal of Pathology and Microbiology,50, 18-24 (2007)
  17. Moutri L. and Ali W., COX1 and COX2 Polymorphisms and Gastric Cancer Risk in a Polish Population, Anticancer Research,27, 43-48 (2007)
  18. Kirk B.W., Feinsod M., Favis R., Kliman R. and Barany F., Single nucleotide polymorphism seeking long term association with complex disease, Nucleic Acids Research,30, 32953311 (2002)
  19. Johannsson O., Loman N., Moller T., Kristofferson U., Borg A. and Olsson H., Incidence of malignant tumours in BRCA1 germline mutation carriers, European Journal of Cancer, 35, 1248-1257 (1999)
  20. Matullo G., Palli D., Peluso M., Guarrera S., Carturan S., Celentano E., Krogh V., Munnia A., Tumino R., Polidoro S., Piazza A. and Vineis P., XRCC1, XPD gene polymorphisms, smoking and (32)P-DNA adducts in a sample of healthy subjects, Carcinogenesis,22, 14371445 (2001)
  21. Liu Q. and Sommer S.S., Pyrophosphorolysis-activatable oligonucleotides may facilitate detection of rare alleles, mutation scanning and analysis of chromatin structures, Nucleic Acids Research,30, 598604 (2009)