ArticlePloS one2012
Catalog of microRNA seed polymorphisms in vertebrates.
Article in PloS one, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers.
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Who cites it
34 citing papers in PubMed, 66 citations in OpenAlex.
- Challenging Cellular Homeostasis: Spatial and Temporal Regulation of miRNAs.International journal of molecular sciences · 2022Review
- MicroRNAs in Genetic Etiology of Human Diseases.Methods in molecular biology (Clifton, N.J.) · 2022Article
- DISE/6mer seed toxicity-a powerful anti-cancer mechanism with implications for other diseases.Journal of experimental & clinical cancer research : CR · 2021Review
- Evaluating the beneficial effects of dietary restrictions: A framework for precision nutrigeroscience.Cell metabolism · 2021Review
- Application of the targeted sequencing approach reveals the single nucleotide polymorphism (SNP) repertoire in microRNA genes in the pig genome.Scientific reports · 2021Article
- MicroRNAs Regulating Autophagy in Neurodegeneration.Advances in experimental medicine and biology · 2021Article
- miR-499 rs3746444 and miR-196a-2 rs11614913 Are Associated with the Risk of Glioma, but Not the Prognosis.Molecular therapy. Nucleic acids · 2020Article
- Genome-Wide Analysis of MicroRNA-related Single Nucleotide Polymorphisms (SNPs) in Mouse Genome.Scientific reports · 2020Article
- Variants in vincristine pharmacodynamic genes involved in neurotoxicity at induction phase in the therapy of pediatric acute lymphoblastic leukemia.The pharmacogenomics journal · 2019Article
- Functional miRNA variants affect lung cancer susceptibility and platinum-based chemotherapy response.Journal of thoracic disease · 2018Article
- MSDD: a manually curated database of experimentally supported associations among miRNAs, SNPs and human diseases.Nucleic acids research · 2018Article
- Effect ofAsian-Australasian journal of animal sciences · 2017Article
- Construction of an integrative regulatory element and variation map of the murine Tst locus.BMC genetics · 2016Article
- In silico analysis of polymorphisms in microRNAs that target genes affecting aerobic glycolysis.Annals of translational medicine · 2016Article
- Genetic Variability of MicroRNA Genes in 15 Animal Species.Journal of genomics · 2015Article
- Genetic variability of microRNA regulome in human.Molecular genetics & genomic medicine · 2015Article
- An update of miRNASNP database for better SNP selection by GWAS data, miRNA expression and online tools.Database : the journal of biological databases and curation · 2015Article
- Data integration of 104 studies related with microRNA epigenetics revealed that miR-34 gene family is silenced by DNA methylation in the highest number of cancer types.Discoveries (Craiova, Romania) · 2014Article
- Identification of putative pathogenic SNPs implied in schizophrenia-associated miRNAs.BMC bioinformatics · 2014Article
- Single nucleotide polymorphism-specific regulation of matrix metalloproteinase-9 by multiple miRNAs targeting the coding exon.Nucleic acids research · 2014Article
Corrections and comments
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Authors and funding
8 authors at 3 institutions in 3 countries.
Funding
Abstract
MicroRNAs (miRNAs) are a class of non-coding RNA that plays an important role in posttranscriptional regulation of mRNA. Evidence has shown that miRNA gene variability might interfere with its function resulting in phenotypic variation and disease susceptibility. A major role in miRNA target recognition is ascribed to complementarity with the miRNA seed region that can be affected by polymorphisms. In the present study, we developed an online tool for the detection of miRNA polymorphisms (miRNA SNiPer) in vertebrates (http://www.integratomics-time.com/miRNA-SNiPer) and generated a catalog of miRNA seed region polymorphisms (miR-seed-SNPs) consisting of 149 SNPs in six species. Although a majority of detected polymorphisms were due to point mutations, two consecutive nucleotide substitutions (double nucleotide polymorphisms, DNPs) were also identified in nine miRNAs. We determined that miR-SNPs are frequently located within the quantitative trait loci (QTL), chromosome fragile sites, and cancer susceptibility loci, indicating their potential role in the genetic control of various complex traits. To test this further, we performed an association analysis between the mmu-miR-717 seed SNP rs30372501, which is polymorphic in a large number of standard inbred strains, and all phenotypic traits in these strains deposited in the Mouse Phenome Database. Analysis showed a significant association between the mmu-miR-717 seed SNP and a diverse array of traits including behavior, blood-clinical chemistry, body weight size and growth, and immune system suggesting that seed SNPs can indeed have major pleiotropic effects. The bioinformatics analyses, data and tools developed in the present study can serve researchers as a starting point in testing more targeted hypotheses and designing experiments using optimal species or strains for further mechanistic studies.
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