MicroRNA signature for estimating the survival time in patients with bladder urothelial carcinoma

• Published in: Scientific reports Vol. 12; no. 1; p. 4141
• Main Authors: Yerukala Sathipati, Srinivasulu, Tsai, Ming-Ju, Shukla, Sanjay K., Ho, Shinn-Ying, Liu, Yi, Beheshti, Afshin
• Format: Journal Article
• Language: English
• Published: London Nature Publishing Group UK 09.03.2022; Nature Publishing Group; Nature Portfolio
• Subjects: 631/114; 631/67/69; Bioinformatics; Biomarkers; Bladder cancer; Correlation coefficient; Diagnosis; Heterogeneity; Humanities and Social Sciences; Medical prognosis; MicroRNAs; miRNA; multidisciplinary; Patients; Prognosis; Science; Science (multidisciplinary); Survival; Therapeutic applications; Urothelial carcinoma
• ISSN: 2045-2322; 2045-2322
• DOI: 10.1038/s41598-022-08082-7

Bladder urothelial carcinoma (BLC) is one of the most common cancers in men, and its heterogeneity challenges the treatment to cure this disease. Recently, microRNAs (miRNAs) gained promising attention as biomarkers due to their potential roles in cancer biology. Identifying survival-associated miRNAs may help identify targets for therapeutic interventions in BLC. This work aims to identify a miRNA signature that could estimate the survival in patients with BLC. We developed a survival estimation method called BLC-SVR based on support vector regression incorporated with an optimal feature selection algorithm to select a robust set of miRNAs as a signature to estimate the survival in patients with BLC. BLC-SVR identified a miRNA signature consisting of 29 miRNAs and obtained a mean squared correlation coefficient and mean absolute error of 0.79 ± 0.02 and 0.52 ± 0.32 year between actual and estimated survival times, respectively. The prediction performance of BLC-SVR had a better estimation capability than other standard regression methods. In the identified miRNA signature, 14 miRNAs, hsa-miR-432-5p, hsa-let-7e-3p, hsa-miR-652-3p, hsa-miR-629-5p, and hsa-miR-203a-3p, hsa-miR-129-5p, hsa-miR-769-3p, hsa-miR-570-3p, hsa-miR-320c, hsa-miR-642a-5p, hsa-miR-496, hsa-miR-5480-3p, hsa-miR-221-5p, and hsa-miR-7-1-3p, were found to be good biomarkers for BLC diagnosis; and the six miRNAs, hsa-miR-652-5p, hsa-miR-193b-5p, hsa-miR-129-5p, hsa-miR-143-5p, hsa-miR-496, and hsa-miR-7-1-3p, were found to be good biomarkers of prognosis. Further bioinformatics analysis of this miRNA signature demonstrated its importance in various biological pathways and gene ontology annotation. The identified miRNA signature would further help in understanding of BLC diagnosis and prognosis in the development of novel miRNA-target based therapeutics in BLC.