ArticleNucleic acids research2012
pre-miRNA profiles obtained through application of locked nucleic acids and deep sequencing reveals complex 5'/3' arm variation including concomitant cleavage and polyuridylation patterns.
Article in Nucleic acids research, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.
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Who cites it
26 citing papers in PubMed.
- MiR-363-3p induces tamoxifen resistance in breast cancer cells through PTEN modulation.Scientific reports · 2024Article
- Promiscuous splicing-derived hairpins are dominant substrates of tailing-mediated defense of miRNA biogenesis in mammals.Cell reports · 2023Article
- MiR&moRe2: A Bioinformatics Tool to Characterize microRNAs and microRNA-Offset RNAs from Small RNA-Seq Data.International journal of molecular sciences · 2020Article
- MicroRNA‑20 induces methylation of hepatitis B virus covalently closed circular DNA in human hepatoma cells.Molecular medicine reports · 2019Article
- Expanding the repertoire of miRNAs and miRNA-offset RNAs expressed in multiple myeloma by small RNA deep sequencing.Blood cancer journal · 2019Article
- Identifying and characterizing functional 3' nucleotide addition in the miRNA pathway.Methods (San Diego, Calif.) · 2019Review
- Deciphering microRNAs and Their Associated Hairpin Precursors in a Non-Model Plant, Abelmoschus esculentus.Non-coding RNA · 2017Article
- MicroRNA Library-Based Functional Screening Identified Androgen-Sensitive miR-216a as a Player in Bicalutamide Resistance in Prostate Cancer.Journal of clinical medicine · 2015Article
- mirPRo-a novel standalone program for differential expression and variation analysis of miRNAs.Scientific reports · 2015Article
- miR-378a-3p modulates tamoxifen sensitivity in breast cancer MCF-7 cells through targeting GOLT1A.Scientific reports · 2015Article
- TUT7 controls the fate of precursor microRNAs by using three different uridylation mechanisms.The EMBO journal · 2015Article
- A MicroRNA precursor surveillance system in quality control of MicroRNA synthesis.Molecular cell · 2014Article
- PAPD5-mediated 3' adenylation and subsequent degradation of miR-21 is disrupted in proliferative disease.Proceedings of the National Academy of Sciences of the United States of America · 2014Article
- MicroRNA in teleost fish.Genome biology and evolution · 2014Review
- Detection of 3'-end RNA uridylation with a protein nanopore.ACS nano · 2014Article
- Comparison of hepatocellular carcinoma miRNA expression profiling as evaluated by next generation sequencing and microarray.PloS one · 2014Article
- Characterization of phosphorus-regulated miR399 and miR827 and their isomirs in barley under phosphorus-sufficient and phosphorus-deficient conditions.BMC plant biology · 2013Article
- Global profiling of miRNAs and the hairpin precursors: insights into miRNA processing and novel miRNA discovery.Nucleic acids research · 2013Article
- Profiling Pre-MicroRNA and Mature MicroRNA Expressions Using a Single Microarray and Avoiding Separate Sample Preparation.Microarrays (Basel, Switzerland) · 2013Article
- Circularized synthetic oligodeoxynucleotides serve as promoterless RNA polymerase III templates for small RNA generation in human cells.Nucleic acids research · 2013Article
Corrections and comments
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Recent research hints at an underappreciated complexity in pre-miRNA processing and regulation. Global profiling of pre-miRNA and its potential to increase understanding of the pre-miRNA landscape is impeded by overlap with highly expressed classes of other non coding (nc) RNA. Here, we present a data set excluding these RNA before sequencing through locked nucleic acids (LNA), greatly increasing pre-miRNA sequence counts with no discernable effect on pre-miRNA or mature miRNA sequencing. Analysis of profiles generated in total, nuclear and cytoplasmic cell fractions reveals that pre-miRNAs are subject to a wide range of regulatory processes involving loci-specific 3'- and 5'-end variation entailing complex cleavage patterns with co-occurring polyuridylation. Additionally, examination of nuclear-enriched flanking sequences of pre-miRNA, particularly those derived from polycistronic miRNA transcripts, provides insight into miRNA and miRNA-offset (moRNA) production, specifically identifying novel classes of RNA potentially functioning as moRNA precursors. Our findings point to particularly intricate regulation of the let-7 family in many ways reminiscent of DICER1-independent, pre-mir-451-like processing, introduce novel and unify known forms of pre-miRNA regulation and processing, and shed new light on overlooked products of miRNA processing pathways.
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