MirGeneDB is a database of manually curated microRNA genes that have been validated and annotated as initially described in Fromm et al. 2015[1] and Fromm et al. 2020.[2] MirGeneDB 2.1[3] includes more than 16,000 microRNA gene entries representing more than 1,500 miRNA families from 75 metazoan species and published in the 2022 NAR database issue. All microRNAs can be browsed, searched and downloaded.
Eutheria (Placental mammals)
Human (Homo sapiens) (567 genes, 268 families)
Rhesus monkey (Macaca mulatta) (520 genes, 235 families)
House mouse (Mus musculus) (452 genes, 224 families)
Norway rat (Rattus norvegicus) (420 genes, 189 families)
Guinea pig (Cavia porcellus) (402 genes, 184 families)
Rabbit (Oryctolagus cuniculus) (391 genes, 185 families)
Dog (Canis familiaris) (455 genes, 211 families)
Cow (Bos taurus) (459 genes, 214 families)
Nine-banded armadillo (Dasypus novemcinctus) (380 genes, 169 families)
Lesser hedgehog tenrec (Echinops telfairi) (350 genes, 166 families)
Metatheria (Marsupial mammals)
Monotremata
Platypus (Ornithorhynchus anatinus) (402 genes, 149 families)
Aves (Birds)
Chicken (Gallus gallus) (286 genes, 136 families)
Rock pigeon (Columba livia) (257 genes, 121 families)
Zebra finch (Taeniopygia guttata) (257 genes, 115 families)
Crocodylia (Alligators and Crocodiles)
Testudines (Turtles)
Squamata (Lizards and Snakes)
Rhynchocephalia (beak-heads)
Tuatara (Sphenodon punctatus) (225 genes, 102 families)
Anura (Frogs and Toads)
Gymnophiona (Apoda)
Actinista (Coelacanths)
Coelacanth (Latimeria chalumnae) (232 genes, 91 families)
Teleostei (Teleost fish)
Pufferfish (Tetraodon nigroviridis) (287 genes, 97 families)
Cod (Gadus morhua) (338 genes, 120 families)
Asian swamp eel (Monopterus albus) (343 genes, 108 families)
Zebrafish (Danio rerio) (414 genes, 113 families)
Holostei (Gars and Bowfins)
Spotted gar (Lepisosteus oculatus) (273 genes, 104 families)
Chondrichthyes (Cartilaginous fish)
Cyclostomata
Urochordata (Sea squirts)
Sea Squirt (Ciona intestinalis) (107 genes, 72 families)
Cephalochordata (Amphioxus)
Hemichordata
Saccoglossus (Saccoglossus kowalevskii) (78 genes, 50 families)
Ptychodera (Ptychodera flava) (87 genes, 53 families)
Echinodermata
Xenoturbella
Hexapoda (Insects)
Crustacea
Chelicerata
Nematoda
Roundworm (Caenorhabditis elegans) (145 genes, 90 families)
Roundworm (Caenorhabditis briggsae) (186 genes, 89 families)
Large roundworm (Ascaris suum) (96 genes, 53 families)
Annelida
Mollusca
Brachiopoda
Lingula (Lingula anatina) (106 genes, 51 families)
Plathyhelminthes
Rotifera
Rotifer (Brachionus plicatilis) (47 genes, 35 families)
Cnidaria
Porifera
Quick Facts Content, Description ...
MirGeneDB MirGeneDB2.0 Description MirGeneDB is a database of manually curated microRNA genes that have been validated and annotated by experts. Research center Arctic University of Norway , Science for Life Laboratory , Oslo University Hospital , Dartmouth College Authors Bastian Fromm & Kevin J. Peterson Primary citation Bastian Fromm, Eirik Høye, Diana Domanska, Xiangfu Zhong, Ernesto Aparicio-Puerta, Vladimir Ovchinnikov, Sinan U Umu, Peter J Chabot, Wenjing Kang, Morteza Aslanzadeh, Marcel Tarbier, Emilio Mármol-Sánchez, Gianvito Urgese, Morten Johansen, Eivind Hovig, Michael Hackenberg, Marc R Friedländer, Kevin J Peterson, MirGeneDB 2.1: toward a complete sampling of all major animal phyla, Nucleic Acids Research, 2021, https://doi.org/10.1093/nar/gkab1101 Release date 2015, 2020, 2021 Website http://www.mirgenedb.org/ Version 2.1 Curation policy manual
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Fromm, Bastian; Billipp, Tyler; Peck, Liam E.; Johansen, Morten; Tarver, James E.; King, Benjamin L.; Newcomb, James M.; Sempere, Lorenzo F.; Flatmark, Kjersti; Hovig, Eivind; Peterson, Kevin J. (2015-11-23). "A Uniform System for the Annotation of Vertebrate microRNA Genes and the Evolution of the Human microRNAome" . Annual Review of Genetics . 49 (1): 213–242. doi :10.1146/annurev-genet-120213-092023 . ISSN 0066-4197 . PMC 4743252 . PMID 26473382 .
Fromm, Bastian; Domanska, Diana; Høye, Eirik; Ovchinnikov, Vladimir; Kang, Wenjing; Aparicio-Puerta, Ernesto; Johansen, Morten; Flatmark, Kjersti; Mathelier, Anthony; Hovig, Eivind; Hackenberg, Michael (2020-01-08). "MirGeneDB 2.0: the metazoan microRNA complement" . Nucleic Acids Research . 48 (D1): D132–D141. doi :10.1093/nar/gkz885 . ISSN 0305-1048 . PMC 6943042 . PMID 31598695 .
Fromm, Bastian; Høye, Eirik; Domanska, Diana; Zhong, Xiangfu; Aparicio-Puerta, Ernesto; Ovchinnikov, Vladimir; Umu, Sinan U; Chabot, Peter J; Kang, Wenjing; Aslanzadeh, Morteza; Tarbier, Marcel (2021-11-25). "MirGeneDB 2.1: toward a complete sampling of all major animal phyla" . Nucleic Acids Research . 50 (D1): D204–D210. doi :10.1093/nar/gkab1101 . ISSN 0305-1048 . PMC 8728216 . PMID 34850127 .