The main purpose of this proposal is to establish the possibility that microRNA (miRNA) could play the role of an oncogene. Through a large-scale microarray data analysis for several cancer types, a set of putative miRNA targeted genes will be identified for each cancer type. Next, we will compute the tissue-tissue cross correlation function for a miRNA and its target. Also, we suggest expanding the targeted gene’s post-transcriptional regulation pathway by integrating the protein-protein interaction data. The above results will be subjected to in vitro experimental validation.
In the first year, the main study is to identify cancer specific differential expressed genes. Differential expressed genes are determined by performing the t-test, where expression level of a normal gene is compared to that of the cancer gene. Two miRNA target prediction tools (miRanda, RNAhybrid) will be employed to predict the putative set of miRNA targeted genes, and the predicted results will be subjected to in vitro test. A positive experimental result supports that miRNA could play the role of an oncogene.
In the second year, we will make use of miRNA and mRNA tissue expression correlation information to valid the miRNA targeting results. Furthermore, the targeted genes’ downstream interactions are retrieved by integrating protein-protein interaction information. This consideration allows us to expand one step beyond the miRNA post-transcriptional regulation relation. Then, the results are subjected to in vitro test. A positive experimental result would further support the regulatory relation.