Identification of Driver Genes and miRNAs in Ovarian Cancer through an Integrated In-Silico Approach

• Published in: Biology (Basel, Switzerland) Vol. 12; no. 2; p. 192
• Main Authors: Beg, Anam, Parveen, Rafat, Fouad, Hassan, Yahia, M E, Hassanein, Azza S
• Format: Journal Article
• Language: English
• Published: Switzerland MDPI AG 26-01-2023; MDPI
• Subjects: Analysis; Biomarkers; Cancer; DEMs; Development and progression; Drug therapy; Genes; Genetic aspects; Genetic diversity; Genomic instability; Malignancy; MicroRNA; MicroRNAs; miRNA; miRNA–mRNA network; module; Oncology, Experimental; Ontology; Ovarian cancer; Ovarian carcinoma; Prognosis; Transcriptomics; DEMs; miRNA–mRNA network; ovarian cancer; module
• ISSN: 2079-7737; 2079-7737
• DOI: 10.3390/biology12020192

Ovarian cancer is the eighth-most common cancer in women and has the highest rate of death among all gynecological malignancies in the Western world. Increasing evidence shows that miRNAs are connected to the progression of ovarian cancer. In the current study, we focus on the identification of miRNA and its associated genes that are responsible for the early prognosis of patients with ovarian cancer. The microarray dataset GSE119055 used in this study was retrieved via the publicly available GEO database by NCBI for the analysis of DEGs. The miRNA GSE119055 dataset includes six ovarian carcinoma samples along with three healthy/primary samples. In our study, DEM analysis of ovarian carcinoma and healthy subjects was performed using R Software to transform and normalize all transcriptomic data along with packages from Bioconductor. Results: We identified miRNA and its associated hub genes from the samples of ovarian cancer. We discovered the top five upregulated miRNAs (hsa-miR-130b-3p, hsa-miR-18a-5p, hsa-miR-182-5p, hsa-miR-187-3p, and hsa-miR-378a-3p) and the top five downregulated miRNAs (hsa-miR-501-3p, hsa-miR-4324, hsa-miR-500a-3p, hsa-miR-1271-5p, and hsa-miR-660-5p) from the network and their associated genes, which include seven common genes (SCN2A, BCL2, MAF, ZNF532, CADM1, ELAVL2, and ESRRG) that were considered hub genes for the downregulated network. Similarly, for upregulated miRNAs we found two hub genes (PRKACB and TAOK1).