RT Journal Article
T1 MirGeneDB 2.1: toward a complete sampling of all major animal phyla.
A1 Fromm, Bastian
A1 Høye, Eirik
A1 Domanska, Diana
A1 Zhong, Xiangfu
A1 Aparicio-Puerta, Ernesto
A1 Ovchinnikov, Vladimir
A1 Umu, Sinan U
A1 Chabot, Peter J
A1 Kang, Wenjing
A1 Aslanzadeh, Morteza
A1 Tarbier, Marcel
A1 Marmol-Sanchez, Emilio
A1 Urgese, Gianvito
A1 Johansen, Morten
A1 Hovig, Eivind
A1 Hackenberg, Michael
A1 Friedländer, Marc R
A1 Peterson, Kevin J
K1 Animals
K1 Databases, Genetic
K1 Humans
AB 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/.
PB Oxford University Press
YR 2021
FD 2021-11-23
LK http://hdl.handle.net/10668/19812
UL http://hdl.handle.net/10668/19812
LA en
NO Fromm B, Høye E, Domanska D, Zhong X, Aparicio-Puerta E, Ovchinnikov V, et al. MirGeneDB 2.1: toward a complete sampling of all major animal phyla. Nucleic Acids Res. 2022 Jan 7;50(D1):D204-D210.
DS RISalud
RD May 9, 2025