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- Bastian Fromm
- The Arctic University Museum of Norway, UiT- The Arctic University of Norway , Tromsø, Norway
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- Eirik Høye
- Department of Tumor Biology, Institute for Cancer Research, The Norwegian Radium Hospital, Oslo University Hospital , Oslo, Norway
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- Diana Domanska
- Center for Bioinformatics, Department of Informatics, University of Oslo , Oslo, Norway
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- Xiangfu Zhong
- Department of Biosciences and Nutrition, Karolinska Institute , Huddinge, Sweden
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- Ernesto Aparicio-Puerta
- Department of Genetics, Faculty of Sciences, MNAT Excellence Unit, University of Granada , Granada, Spain
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- Vladimir Ovchinnikov
- Computational and Molecular Evolutionary Biology Research Group, School of life sciences, Faculty of Medicine and Health Sciences, University of Nottingham , Nottingham, UK
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- Sinan U Umu
- Department of Research , Cancer Registry of Norway, Oslo, Norway
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- Peter J Chabot
- Department of Biological Sciences , Dartmouth College, Hanover, USA
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- Wenjing Kang
- Science for Life Laboratory, Department of Molecular Biosciences, The Wenner-Gren Institute, Stockholm University , Stockholm, Sweden
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- Morteza Aslanzadeh
- Science for Life Laboratory, Department of Molecular Biosciences, The Wenner-Gren Institute, Stockholm University , Stockholm, Sweden
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- Marcel Tarbier
- Science for Life Laboratory, Department of Molecular Biosciences, The Wenner-Gren Institute, Stockholm University , Stockholm, Sweden
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- Emilio Mármol-Sánchez
- Science for Life Laboratory, Department of Molecular Biosciences, The Wenner-Gren Institute, Stockholm University , Stockholm, Sweden
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- Gianvito Urgese
- Politecnico di Torino , Torino, Italy
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- Morten Johansen
- Center for Bioinformatics, Department of Informatics, University of Oslo , Oslo, Norway
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- Eivind Hovig
- Department of Tumor Biology, Institute for Cancer Research, The Norwegian Radium Hospital, Oslo University Hospital , Oslo, Norway
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- Michael Hackenberg
- Department of Genetics, Faculty of Sciences, MNAT Excellence Unit, University of Granada , Granada, Spain
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- Marc R Friedländer
- Science for Life Laboratory, Department of Molecular Biosciences, The Wenner-Gren Institute, Stockholm University , Stockholm, Sweden
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- Kevin J Peterson
- Department of Biological Sciences , Dartmouth College, Hanover, USA
抄録
<jats:title>Abstract</jats:title> <jats:p>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/.</jats:p>
収録刊行物
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- Nucleic Acids Research
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Nucleic Acids Research 50 (D1), D204-D210, 2021-11-25
Oxford University Press (OUP)