An enhanced topologically significant directed random walk in cancer classification using gene expression datasets

• Published in: Saudi journal of biological sciences Vol. 24; no. 8; pp. 1828 - 1841
• Main Authors: Seah, Choon Sen, Kasim, Shahreen, Fudzee, Mohd Farhan Md, Law Tze Ping, Jeffrey Mark, Mohamad, Mohd Saberi, Saedudin, Rd Rohmat, Ismail, Mohd Arfian
• Format: Journal Article
• Language: English
• Published: Riyadh, Saudi Arabia Elsevier B.V 01.12.2017; Saudi Biological Society; Elsevier
• Subjects: Directed random walk algorithm; Group specific tuning parameter; Pathway; Directed random walk algorithm; Pathway; Group specific tuning parameter
• ISSN: 1319-562X; 2213-7106
• DOI: 10.1016/j.sjbs.2017.11.024

Microarray technology has become one of the elementary tools for researchers to study the genome of organisms. As the complexity and heterogeneity of cancer is being increasingly appreciated through genomic analysis, cancerous classification is an emerging important trend. Significant directed random walk is proposed as one of the cancerous classification approach which have higher sensitivity of risk gene prediction and higher accuracy of cancer classification. In this paper, the methodology and material used for the experiment are presented. Tuning parameter selection method and weight as parameter are applied in proposed approach. Gene expression dataset is used as the input datasets while pathway dataset is used to build a directed graph, as reference datasets, to complete the bias process in random walk approach. In addition, we demonstrate that our approach can improve sensitive predictions with higher accuracy and biological meaningful classification result. Comparison result takes place between significant directed random walk and directed random walk to show the improvement in term of sensitivity of prediction and accuracy of cancer classification.