Drug repositioning for non-small cell lung cancer by using machine learning algorithms and topological graph theory. Issue 1 (January 2016)

• Record Type: Journal Article
• Authors: Huang, Chien-Hung; Chang, Peter; Hsu, Chia-Wei; Huang, Chi-Ying; Ng, Ka-Lok
• Is Part Of: BMC bioinformatics. Volume 17:Issue 1(2016)
• Page Start: 13
• Page End: 26
• Publication Date: 2016-01
• Subjects: Non-small cell lung cancer -- Drug repositioning -- Microarray data analysis -- Machine learning algorithm -- Topological parameters -- Protein-protein interactions -- Enrichment analysis -- Connectivity Map; Bioinformatics -- Periodicals; Computational biology -- Periodicals; 570.285
• DOI: 10.1186/s12859-015-0845-0
• Languages: English
• ISSNs: 1471-2105

Abstract

Abstract Background Non-small cell lung cancer (NSCLC) is one of the leading causes of death globally, and research into NSCLC has been accumulating steadily over several years. Drug repositioning is the current trend in the pharmaceutical industry for identifying potential new uses for existing drugs and accelerating the development process of drugs, as well as reducing side effects. Results This work integrates two approaches - machine learning algorithms and topological parameter-based classification - to develop a novel pipeline of drug repositioning to analyze four lung cancer microarray datasets, enriched biological processes, potential therapeutic drugs and targeted genes for NSCLC treatments. A total of 7 (8) and 11 (12) promising drugs (targeted genes) were discovered for treating early- and late-stage NSCLC, respectively. The effectiveness of these drugs is supported by the literature, experimentally determined in-vitro IC50 and clinical trials. This work provides better drug prediction accuracy than competitive research according to IC50 measurements. Conclusions With the novel pipeline of drug repositioning, the discovery of enriched pathways and potential drugs related to NSCLC can provide insight into the key regulators of tumorigenesis and the treatment of NSCLC. Based on the verified effectiveness of the targeted drugs predicted by this pipeline, we suggest that our drug-finding pipeline is effective for repositioning drugs.