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MicroRNAs (miRNAs) are small (19-22 nucleotide) non-protein-coding RNA molecules that function to regulate the expression of specific gene products via hybridization to mRNA transcripts, in concert with associated ribonucleoprotein complexes, to effect translational blockade or message degradation. Although miRNAs have been implicated in numerous developmental and adult disease states, including cancer, their impact on distinct biological pathways and phenotypes remains largely unknown. To address this need for the biomedical research community, we have developed MMIAs, microRNA and mRNA integrated analysis, a versatile and user-friendly web server. MMIA integrates microRNA and mRNA expression data with predicted microRNA target information for analyzing microRNA-associated phenotypes and biological functions by Gene Set Enrichment Analysis (GSEA). To assign biological relevance to the integrated microRNA/mRNA profiles, MMIA uses exhaustive human genome coverage (5782 gene sets), including various disease-associated genes as well as conventional canonical pathways and Gene Ontology. This novel web server provides users with miRNA-mRNA expression data combined analysis tools and broad gene sets. |
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i) users leave the the thresholding checkbox ,the filtering checkbox, and the log2 transformation checkbox in the "Preprocessing options" unchecked in miRNA or mRNA data section, ii) users select "None" in the "standardization" method in miRNA or mRNA data section, and iii) users check the "fold-change" checkbox in the "Test options" in miRNA or mRNA data section. |
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The main input steps of the server are Steps #1.A Data section and #3.A Data section. The sections need microRNA expression data and mRNA expression data which comply with the format in the previous description. The following is a general procedure. | |
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Seungyoon Nam, Meng Li, Kwangmin Choi, Curtis Balch, Sun Kim, and Kenneth P. Nephew, "MicroRNA and mRNA integrated analysis (MMIA): a web tool for examining biological functions of microRNA expression", Nucleic Acids Research, Web Server Issue (2009), in press. | |
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For any bug reports, suggestions and helps, please contact at Dr. Nephew. |
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