ArticleNucleic acids research2013
Global profiling of miRNAs and the hairpin precursors: insights into miRNA processing and novel miRNA discovery.
Article in Nucleic acids research, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers, 1 of them a synthesis that pooled it.
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Who cites it
35 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Unfolding the pathogenesis of scleroderma through genomics and epigenomics.Journal of autoimmunity · 2017Pooled it
- Characterization, functional exploration, and evolutionary analysis of mirtronic microRNAs reveal their origin in the invasive vector mosquito, Aedes albopictus.Insect science · 2026Article
- microRNA-34 mediates a negative feedback loop in the JAK-STAT pathway to attenuate immune overactivation in an invertebrate.Cell communication and signaling : CCS · 2025Article
- The Effect of Alternative Splicing Sites on Mirtron Formation and Arm Selection of Precursor microRNAs.International journal of molecular sciences · 2024Article
- Virus-Induced MicroRNA Modulation and Systemic Sclerosis Disease.Biomedicines · 2024Review
- Discerning the Prospects of miRNAs as a Multi-Target Therapeutic and Diagnostic for Alzheimer's Disease.Molecular neurobiology · 2023Review
- Role of microRNAs in B-Cell Compartment: Development, Proliferation and Hematological Diseases.Biomedicines · 2022Review
- An Insight Into Pentatricopeptide-Mediated Chloroplast NecrosisFrontiers in genetics · 2022Article
- The molecular mechanism of RIG-I activation and signaling.Immunological reviews · 2021Review
- AASRA: an anchor alignment-based small RNA annotation pipeline†.Biology of reproduction · 2021Article
- A deep learning framework to predict binding preference of RNA constituents on protein surface.Nature communications · 2019Article
- Linear-hairpin variable primer RT-qPCR for MicroRNA.Chemical science · 2019Article
- Identifying and characterizing functional 3' nucleotide addition in the miRNA pathway.Methods (San Diego, Calif.) · 2019Review
- Dicer-independent processing of small RNA duplexes: mechanistic insights and applications.Nucleic acids research · 2017Review
- Two-tailed RT-qPCR: a novel method for highly accurate miRNA quantification.Nucleic acids research · 2017Article
- Deciphering microRNAs and Their Associated Hairpin Precursors in a Non-Model Plant, Abelmoschus esculentus.Non-coding RNA · 2017Article
- QuickMIRSeq: a pipeline for quick and accurate quantification of both known miRNAs and isomiRs by jointly processing multiple samples from microRNA sequencing.BMC bioinformatics · 2017Article
- Circulating microRNAs as Potential Biomarkers of Infectious Disease.Frontiers in immunology · 2017Review
- The microRNA toolkit of insects.Scientific reports · 2016Article
- Article
Corrections and comments
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Authors and funding
12 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
MicroRNAs (miRNAs) constitute an important class of small regulatory RNAs that are derived from distinct hairpin precursors (pre-miRNAs). In contrast to mature miRNAs, which have been characterized in numerous genome-wide studies of different organisms, research on global profiling of pre-miRNAs is limited. Here, using massive parallel sequencing, we have performed global characterization of both mouse mature and precursor miRNAs. In total, 87 369 704 and 252 003 sequencing reads derived from 887 mature and 281 precursor miRNAs were obtained, respectively. Our analysis revealed new aspects of miRNA/pre-miRNA processing and modification, including eight Ago2-cleaved pre-miRNAs, eight new instances of miRNA editing and exclusively 5' tailed mirtrons. Furthermore, based on the sequences of both mature and precursor miRNAs, we developed a miRNA discovery pipeline, miRGrep, which does not rely on the availability of genome reference sequences. In addition to 239 known mouse pre-miRNAs, miRGrep predicted 41 novel ones with high confidence. Similar as known ones, the mature miRNAs derived from most of these novel loci showed both reduced abundance following Dicer knockdown and the binding with Argonaute2. Evaluation on data sets obtained from Caenorhabditis elegans and Caenorhabditis sp.11 demonstrated that miRGrep could be widely used for miRNA discovery in metazoans, especially in those without genome reference sequences.
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Registered trials
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.