Data Analysis and Network Study of Non-small-cell Lung Cancer Biomarkers
Non-small-cell lung cancers (NSCLCs) are the most common lung cancers and account for more than 80% of all lung cancers. The principal objective of this study is to identify and characterize novel cancer biomarkers through transcriptome screening in non-small-cell lung cancer patients to determine their role in cancer progression. From the microarray data for non-small-cell lung cancer, genes were screened based on their upregulated expression levels. Cytoscape was used to make the gene network of all such selected genes and also for build-up network modules for genes with maximum expression levels. The accuracy of the result was further validated by performing a comparative study among the cancer and developmental genes. Three genes, AURKA, TFAP2A, CREBBP, respectively, were found to be involved in NSCLC. Further, the work sheds light on the fact that TFAP2A gene might play an important role as a novel biomarker for non-small-cell lung cancer. So, potent drug molecules against the target gene (TFAP2A) can be searched and applied for docking in further studies.
KeywordsSystem biology Transcriptome Cytoscape TFAP2A
We thankfully acknowledge Mr. Amit Gupta, Director, HH Biotechnologies Pvt. Ltd, India, for extending the help and suggestion at the crucial time.
- 4.N. Goossens, S. Nakagawa, X. Sun, Y. Hoshida, Cancer biomarker discovery and validation. Transl. Cancer Res. 4(3), 256–269 (2015)Google Scholar
- 6.S.W. Luoh, B. Ramsey, A.H. Newell, M. Troxell, Z. Hu, K. Chin, P. Spellman, S. Olson, E. Keenan, HER-2 gene amplification in human breast cancer without concurrent HER-2 over-expression. SpringerPlus. 386 (2013)Google Scholar
- 7.E.C. Inwald, M. Klinkhammer-Schalke, F. Hofstädter, F. Zeman, M. Koller, M. Gerstenhauer, O. Ortmann, (2013) Ki-67 is a prognostic parameter in breast cancer patients: results of a large population-based cohort of a cancer registry. Breast cancer research and treatment. pp. 539–552Google Scholar
- 8.B. Webb, A. Sali, Comparative protein structure modeling using modeller. Current Protocols in Bioinformatics 54, John Wiley & Sons, Inc., 5.6.1–5.6.37 (2016)Google Scholar
- 11.D. Roy, K. Mukherjee, Homology modeling and docking studies of human chitotriosidase with its natural inhibitors. J. Proteins Proteomics 6(2), 183–196 (2015)Google Scholar