In Silico Integration Approach Reveals Key MicroRNAs and Their Target Genes in Follicular Thyroid Carcinoma.

Abstract

To better understand the molecular mechanism for the pathogenesis of follicular thyroid carcinoma (FTC), this study aimed at identifying key miRNAs and their target genes associated with FTC, as well as analyzing their interactions. Based on the gene microarray data GSE82208 and microRNA dataset GSE62054, the differentially expressed genes (DEGs) and microRNAs (DEMs) were obtained using R and SAM software. The common DEMs from R and SAM were fed to three different bioinformatic tools, TargetScan, miRDB, and miRTarBase, respectively, to predict their biological targets. With DEGs intersected with target genes of DEMs, the gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis were performed through the DAVID database. Then a protein-protein interaction (PPI) network was constructed by STRING. Finally, the module analysis for PPI network was performed by MCODE and BiNGO. A total of nine DEMs were identified, and their function might work through regulating hub genes in the PPI network especially KIT and EGFR. KEGG analysis showed that intersection genes were enriched in the PI3K-Akt signaling pathway and microRNAs in cancer. In conclusion, the study of miRNA-mRNA network would offer molecular support for differential diagnosis between malignant FTC and benign FTA, providing new insights into the potential targets for follicular thyroid carcinoma diagnosis and treatment.

• Authors: Shengqing Hu, Yunfei Liao, Juan Zheng, Luoning Gou, Anita Regmi, Mohammad Ishraq Zafar, Lulu Chen
• Journal: BioMed research international (Biomed Res Int) Vol. 2019 Pg. 2725192 ( 2019) ISSN: 2314-6141 [Electronic] United States
• PMID: 31032340 (Publication Type: Journal Article)

Chemical References

• Biomarkers, Tumor
• MicroRNAs
• Phosphatidylinositol 3-Kinases
• Proto-Oncogene Proteins c-akt

Topics

• Adenocarcinoma, Follicular (genetics, pathology)
• Biomarkers, Tumor (genetics)
• Computational Biology
• Gene Expression Regulation, Neoplastic (genetics)
• Gene Regulatory Networks (genetics)
• Humans
• MicroRNAs (genetics)
• Phosphatidylinositol 3-Kinases (genetics)
• Protein Interaction Maps (genetics)
• Proto-Oncogene Proteins c-akt (genetics)
• Signal Transduction (genetics)
• Software
• Transcriptome (genetics)