Identification of potential diagnostic microRNAs and lncRNAs in breast carcinoma: Integrated high-throughput bioinformatics investigation

Breast cancer is the second foremost cause of death among women worldwide. MicroRNAs and lncRNAsare involved in regulating the expression of certain genes, as well as some biological processes in breastcarcinoma. In the present study, we focused on identifying potential diagnostic microRNAs and lncRNAs inbreast cancer using bioinformatics analysis. Breast cancer Microarray dataset GSE۲۹۴۳۱ was selected fromGene Expression Omnibus (GEO), then differentially expressed genes (DEGs) were screened. DEG analysiswas performed using limma and GEOquery packages in R studio (v.۴.۰.۲). The most significant genes (logFC> ۳ and adjusted p-value < ۰.۰۵) were selected, and taken to miRWalk, to find relevant microRNAs. LncBasev.۲ was employed to find decent lncRNAs (score = ۱.۰۰۰). Finally, we used STRING to find PPI network.After careful analysis of GSE۲۹۴۳۱ dataset, a total number of ۲۸۶ up-regulated genes were detected in breastcarcinoma. AGR۲ (logFC = ۳.۸۴, adjusted p-value = ۲.۴۸E – ۰۵), Muc۱ (logFC = ۳.۴۵ and adjusted p-value= ۳.۷۶E - ۰۶) and PLPP۴ (logFC = ۳.۴۱ and adjusted p-value = ۱.۲۰E – ۰۷) had remarkable expressions. Allof genes were taken to miRWalk. We identified hsa-miR-۱۹۷-۳p, hsa-miR-۱۴۵-۵p as well as hsa-miR-۱۴۸a-۳p relating to AGR۲, Muc۱ and PLPP۴, respectively. According to lncBase v.۲, various lncRNAs includingKCNQ۱OT۱, GLIDR and OIP۵-AS۱ was detected as potential lncRNAs, showing score = ۱.۰۰۰. Except forAGR۲-Muc۱ interaction network (gene co-expression score = ۰.۲۱۳), there was no gene interaction amongother genes. Based on results, three microRNAs including has-miR-۱۹۷-۳p, has-miR-۱۴۵-۵p and has-miR-۱۴۸a-۳p, up-regulated in breast cancer, and have oncogenic role in this kind of carcinoma. Relating to thesemicroRNAs, the expressions of KCNQ۱OT۱, GLIDR and OIP۵-AS۱ rise in breast cancer, so, they could beconsidered as potential diagnosis factors in breast carcinoma.

کلیدواژه ها:

Breast cancer ، microRNAs ، lncRNAs ، GEO