Single nucleotide polymorphism affects the minimum free energy of miR-۶۱۳: A Bioinformatic analysis

Background and Aim: Breast cancer (BC) is considered as the leading cause of death among women globally and causes near ۵۰۰,۰۰۰ deaths annually. BC is known as a heterogeneous and multifactorial disease. It is highly important to take the necessary steps before the development and progression of BC. Early diagnosis by recruiting multi-disciplinary approaches is required accordingly. Since the genetic alterations are related to an increased risk of BC, tracing associated microRNA (miRNA) markers could provide early diagnosis of BC. It has been identified that miR-۶۱۳ is correlated with the incidence of BC through two different mechanisms. Single nucleotide polymorphisms (SNPs) are loci within a genome that occurs between two or more alleles. SNPs in the miRNA sequence is seen to affect its function. To investigate alterations of the secondary structure of miR-۶۱۳ in response to SNPs, bioinformatic analysis was conducted. For this purpose, we calculated the minimum free energy (MFE) of miR-۶۱۳ and rs۷۵۵۹۳۴۶۸۳, rs۷۶۱۵۲۴۰۴۸, rs۷۷۷۱۲۴۸۱۱, and rs۷۸۰۱۴۴۴۲۱.Methods: “miRCancer” database was used to validate the expression profile of miR-۶۱۳ in BC. The sequence of the microRNA was obtained from “miRbase” database. “miRTargetLinkHuman” webserver was used to visualize the molecular interaction network of miR-۶۱۳ and its targets.“ViennaRNA” web service was used to investigate the effect of this variation on the stem-loop structure and to determine the minimum free energy (MFE) of the polymorphic and non-polymorphic variants.Results: While the MFE of non-polymorphic sequence of mir-۶۱۳ was -۲۷.۴۰ kcal/mol, the MFE for rs۷۵۵۹۳۴۶۸۳, rs۷۶۱۵۲۴۰۴۸, rs۷۷۷۱۲۴۸۱۱ and rs۷۸۰۱۴۴۴۲۱ was -۲۵.۳۰, -۲۷.۱۰, -۲۵.۵۰ and -۲۹.۰۰ kcal/mol, respectively.Conclusion: According to the suppressive role of miR-۶۱۳ in cell migration of triple-negative BC (TNBC) cells via reducing the protein level of Daam۱ and also its inhibition role of cell proliferation, this bioinformatic study was conducted to investigate how some SNPs (rs۷۵۵۹۳۴۶۸۳, rs۷۶۱۵۲۴۰۴۸, rs۷۷۷۱۲۴۸۱۱, and rs۷۸۰۱۴۴۴۲۱) might affect the secondary structure of miR-۶۱۳.

کلیدواژه ها:

miR-۶۱۳ ، Breast cancer ، SNP