ArticleGenome research2017
Novel determinants of mammalian primary microRNA processing revealed by systematic evaluation of hairpin-containing transcripts and human genetic variation.
Article in Genome research, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 58 papers.
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Who cites it
58 citing papers in PubMed.
- miRNA gene mutations commonly disrupt the proper functioning of miRNA genes.Science advances · 2026Article
- shRNAI: A deep neural network for the design of highly potent shRNAs.Molecular therapy. Nucleic acids · 2025Article
- Disease-related miRNA mutations are associated with mature miRNA secondary structure changes.Biophysical journal · 2025Article
- A guide to the biogenesis and functions of endogenous small non-coding RNAs in animals.Nature reviews. Molecular cell biology · 2025Review
- Insights into the evolution and regulation of miRNAs from the view of their DNA replication temporal domains.Frontiers in genetics · 2025Article
- Relationship Between the Occurrence of Depression andInternational journal of molecular sciences · 2024Article
- Review
- LinQURE: A novel AAV gene silencing platform that supports multi-transcript targeting for complex disorders.Molecular therapy. Nucleic acids · 2024Article
- Regulation of Microprocessor assembly and localization via Pasha's WW domain inbioRxiv : the preprint server for biology · 2024Article
- Article
- SRSF3 shapes the structure of miR-17-92 cluster RNA and promotes selective processing of miR-17 and miR-20a.EMBO reports · 2023Article
- Dissection of the Caenorhabditis elegans Microprocessor.Nucleic acids research · 2023Article
- PPMS: A framework to Profile Primary MicroRNAs from Single-cell RNA-sequencing datasets.Briefings in bioinformatics · 2022Article
- BrumiR: A toolkit for de novo discovery of microRNAs from sRNA-seq data.GigaScience · 2022Article
- hnRNPC induces isoform shifts in miR-21-5p leading to cancer development.Experimental & molecular medicine · 2022Article
- Implication of genetic variants in primary microRNA processing sites in the risk of multiple sclerosis.EBioMedicine · 2022Article
- miR-155-3p: processing by-product or rising star in immunity and cancer?Open biology · 2022Review
- Secondary structure RNA elements control the cleavage activity of DICER.Nature communications · 2022Article
- A novel algorithm for ranking RNA structure candidates.Biophysical journal · 2022Article
- Flexible pri-miRNA structures enable tunable production of 5' isomiRs.RNA biology · 2022Article
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11 authors.
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Abstract
Mature microRNAs (miRNAs) are processed from hairpin-containing primary miRNAs (pri-miRNAs). However, rules that distinguish pri-miRNAs from other hairpin-containing transcripts in the genome are incompletely understood. By developing a computational pipeline to systematically evaluate 30 structural and sequence features of mammalian RNA hairpins, we report several new rules that are preferentially utilized in miRNA hairpins and govern efficient pri-miRNA processing. We propose that a hairpin stem length of 36 ± 3 nt is optimal for pri-miRNA processing. We identify two bulge-depleted regions on the miRNA stem, located ∼16-21 nt and ∼28-32 nt from the base of the stem, that are less tolerant of unpaired bases. We further show that the CNNC primary sequence motif selectively enhances the processing of optimal-length hairpins. We predict that a small but significant fraction of human single-nucleotide polymorphisms (SNPs) alter pri-miRNA processing, and confirm several predictions experimentally including a disease-causing mutation. Our study enhances the rules governing mammalian pri-miRNA processing and suggests a diverse impact of human genetic variation on miRNA biogenesis.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.