• Knowledge-based analysis of functional impacts of mutations in microRNA seed regions

    • Fulltext


        Click here to view fulltext PDF

      Permanent link:

    • Keywords


      Gene ontology; microRNA; mutation; semantic similarity

    • Abstract


      MicroRNAs are a class of important post-transcriptional regulators. Genetic and somatic mutations in miRNAs, especially those in the seed regions, have profound and broad impacts on gene expression and physiological and pathological processes. Over 500 SNPs were mapped to the miRNA seeds, which are located at position 2–8 of the mature miRNA sequences. We found that the central positions of the miRNA seeds contain fewer genetic variants and therefore are more evolutionary conserved than the peripheral positions in the seeds. We developed a knowledge-based method to analyse the functional impacts of mutations in miRNA seed regions. We computed the gene ontology-based similarity score GOSS and the GOSS percentile score for all 517 SNPs in miRNA seeds. In addition to the annotation of SNPs for their functional effects, in the present article we also present a detailed analysis pipeline for finding the key functional changes for seed SNPs. We performed a detailed gene ontology graph-based analysis of enriched functional categories for miRNA target gene sets. In the analysis of a SNP in the seed region of hsa-miR-96 we found that two key biological processes for progressive hearing loss `Neurotrophin TRK receptor signaling pathway' and `Epidermal growth factor receptor signaling pathway' were significantly and differentially enriched by the two sets of allele-specific target genes of miRNA hsa-miR-96.

    • Author Affiliations


      Anindya Bhattacharya1 Yan Cui1

      1. Department of Microbiology, Immunology and Biochemistry and Center for Integrative and Translational Genomics, University of Tennessee Health Science Center, Memphis, TN 38163, USA
    • Dates

    • Supplementary Material

  • Journal of Biosciences | News

    • Editorial Note on Continuous Article Publication

      Posted on July 25, 2019

      Click here for Editorial Note on CAP Mode

© 2021-2022 Indian Academy of Sciences, Bengaluru.