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Candidate Biomarker Identification for the Cancers of Mouth Cavity Using Gene Expression Data

Preeti Honagudi, V.G. Shanmugapriya , U.M. Muddapur , Anita Vibhuti

Gene expression indicates the present state of the cell. Samples associated with the normal and oral tissue in Homo sapiens are collected by providing different oral tissue query terms from GEO and ArrayExpress database. Manual curation is carried using Standard Operating Procedure (SOP) provided by IBAB for both normal and cancerous condition. These samples are submitted to the novel algorithm developed at IBAB, Bangalore, to validate samples and identify oral cancer specific genes. The study retrieved 2065 samples for oral cancer condition in Homo sapiens. Out of 2065 samples, genes expressed in oral cancer were 12062; genes not expressed in oral cancer were 7811. The study also retrieved 838 samples for normal oral condition, out of which genes expressed in Normal oral, were 12112 and genes not expressed in Normal oral were 7812. By comparison, 518 genes were identified which were expressed in oral cancer and not detected in Normal oral tissue.