In-silico analysis of hsa-mir-17-5p in hepatocellular carcinoma

In-silico analysis of hsa-mir-17-5p in hepatocellular carcinoma
Anasik Karabedianhajiabadi,^1,* Fateme Abedi Dorcheh,² Setare Samizade,³ Alireza Nasr Isfahani,⁴
1. Department of Microbiology, School of Biological Sciences, Islamic Azad University of Falavarjan, Iran
2. Department of Biochemistry, School of Bioscience and Biotechnology, Shahid Ashrafi University of Sepahanshahr, Isfahan, Iran
3. Department of Biochemistry, Islamic Azad University, Najafabad Branch, Iran
4. Department of Biochemistry, Islamic Azad University, Najafabad Branch, Iran
Introduction: Hepatocellular carcinoma (HCC) is not only the most frequent liver primary cancer but also a leading cause of cancer related to death in worldwide. There are many genetic factors which may be able to increase the risk of cancer infection. According to the researches, miRNAs (small non-coding RNAs) and SNPs (single nucleotide polymorphisms) might develop the progression of hepatocellular carcinoma. A large-scale of studies lead us to hsa-mir-17-5p of chromosome 13 for bioinformatics analysis of hepatocellular carcinoma.
Methods: To perform a wide range of bioinformatics analysis miRBase, miRTarbase, miRWalk, TargetScan, DIANA TOOLS, DAVID, miRdSNP, miRSNPdb, miRNASNP, GeneMANIA databases, R programming language and GraphPad Prism 8.0 were needed to get required data about micoRNA basis, validated and predicted target genes, signaling pathways, SNP and genes' interaction networks, genes’ expressions and genes’ expression analysis by Heatmap.
Results: The bioinformatics analysis has been demonstrated that, INSR, MAPK1, AKT3, PIK3CA, PIK3R1, PIK3R2, PIK3R3 as the most frequent genes of hsa-mir-17-5p in Ras, JAK-STAT, Rap1 signaling pathways could have impact on hepatocellular carcinoma progression. In addition, based on a number of analysis, rs3739008 of NPAS2, a target gene, has been detected as a biomarker which might be involved in hepatocellular carcinoma process. Furthermore, via heatmap analysis, the expression of PIK3R2 gene devoted the largest difference among solid tissue normal and primary solid tumor in hepatocellular carcinoma, that might develop a promising diagnosis and treatment for hepatocellular carcinoma.
Conclusion: Based on the studies, it has been revealed that likely hsa-mir-17-5p via inhabitation of SOS1, Akt3, PIK3R3, PIK3R2, PIK3R1, PIK3CA genes by Ras, Rap1 and JAK-STAT signaling pathways which control stem cell proliferation, differentiation, migration and motility suppresses hepatocellular carcinoma. NPAS2 gene is one of the vital genes of hepatocellular carcinoma, that occurrence of rs3739008 in this gene, revealed to have impact on this carcinoma via effecting the target genes function through cancer process.
Keywords: Bioinformatics, miRNA, SNP, Hepatocellular carcinoma, Signaling pathway