ArticleNucleic acids research2022
MirGeneDB 2.1: toward a complete sampling of all major animal phyla.
Article in Nucleic acids research, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 103 papers.
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Who cites it
103 citing papers in PubMed.
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- The clinical and molecular spectrum of AGO2-associated Lessel-Kreienkamp neurodevelopmental syndrome.Genome medicine · 2026Article
- The AGO2 adaptor LIMD1 expands the functional and evolutionary reach of microRNA targeting.Science advances · 2026Article
- PARiS: Probabilistic Assignment and Repartitioning of isomiR Sequences: A data-driven method for denoising isomiR read count data.bioRxiv : the preprint server for biology · 2026Article
- An information content principle explains regulatory patterns of gene expression across human tissues.Nature communications · 2026Article
- The first chromosome-level cubozoan genome differentiates unique and common features in different cnidarian lineages.BMC biology · 2026Article
- miRNA gene mutations commonly disrupt the proper functioning of miRNA genes.Science advances · 2026Article
- An absolute quantification atlas of small non-coding RNAs across diverse mammalian tissues and cell lines.Nature communications · 2026Article
- NBSR: a Negative Binomial Softmax Regression model for microRNA-seq data analysis.Biostatistics (Oxford, England) · 2026Article
- The Epigenetic Angle in the Precision Medicine Era for Blood Disorder Advancements.Sub-cellular biochemistry · 2026Review
- Strongly regulated transcription factors exert an outsized influence in microRNA-regulated networks.Cell communication and signaling : CCS · 2025Article
- Disease-related miRNA mutations are associated with mature miRNA secondary structure changes.Biophysical journal · 2025Article
- Life inside a bag: multiomics insights into the bagworm species Eumeta crameri.DNA research : an international journal for rapid publication of reports on genes and genomes · 2025Article
- Targeting non-coding RNAs to overcome resistance and improving outcomes in glioblastoma.Global medical genetics · 2025Review
- mRNA 3' UTRs direct microRNA degradation to participate in imprinted gene networks and regulate growth.bioRxiv : the preprint server for biology · 2025Article
- Circulating extracellular vesicle isomiR signatures predict therapy response in patients with multiple myeloma.Cell reports. Medicine · 2025Article
- Knowing is not enough; we must apply: the case for rigorous microRNA annotation standards.Nucleic acids research · 2025Article
- A subclass of small RNAs is encoded by exons of protein-coding genes.BMC genomics · 2025Article
- Half of annotated human microRNAs are expressed at levels of questionable biological significance.iScience · 2025Article
- Loss of multiple micro-RNAs uncovers multi-level restructuring of gene regulation in rodents.BMC genomics · 2025Article
43 more citing papers are in PubMed but not listed here.
Corrections and comments
- Erratum issued
Authors and funding
18 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We describe an update of MirGeneDB, the manually curated microRNA gene database. Adhering to uniform and consistent criteria for microRNA annotation and nomenclature, we substantially expanded MirGeneDB with 30 additional species representing previously missing metazoan phyla such as sponges, jellyfish, rotifers and flatworms. MirGeneDB 2.1 now consists of 75 species spanning over ∼800 million years of animal evolution, and contains a total number of 16 670 microRNAs from 1549 families. Over 6000 microRNAs were added in this update using ∼550 datasets with ∼7.5 billion sequencing reads. By adding new phylogenetically important species, especially those relevant for the study of whole genome duplication events, and through updating evolutionary nodes of origin for many families and genes, we were able to substantially refine our nomenclature system. All changes are traceable in the specifically developed MirGeneDB version tracker. The performance of read-pages is improved and microRNA expression matrices for all tissues and species are now also downloadable. Altogether, this update represents a significant step toward a complete sampling of all major metazoan phyla, and a widely needed foundation for comparative microRNA genomics and transcriptomics studies. MirGeneDB 2.1 is part of RNAcentral and Elixir Norway, publicly and freely available at http://www.mirgenedb.org/.
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