Publication Details

Reference Category Journals
DOI / URL link
Title (Primary) Automatic curation of large comparative animal MicroRNA datasets
Author Yazbeck, A.M; Stadler, P.F.; Tout, K.; Fallmann, J.;
Journal Bioinformatics
Year 2019
Department MOLSYB;
Volume 35
Issue 22
Language englisch;
POF III (all) T42;
Data links https://github.com/Bierinformatik/MIRfix
Supplements https://oup.silverchair-cdn.com/oup/backfile/Content_public/Journal/bioinformatics/35/22/10.1093_bioinformatics_btz271/2/btz271_supplementary_data.pdf?Expires=1581168522&Signature=KLWt2kBclkfKcICL4Muj7OqVmFobKVwISm~Xjg1qNefYPrVsclgtM3e1OeyK8ArjIiS7yNB03hFstiL2nCH1yET-ZMlzPJY5KQgBt-8wUtbNXbs48OlhYaK35zQcP0DfdRRV582-JYwqMsGIkAlNMEKWa0K6qj~4NMHiKMpZ2zJXsZxmZW35NMgHBM9EsfFIMHiUiJbx5XN08nNfBjHlCLcIjQPsRUK48DOLMHspLYcQOOotyrp6aJ~xNJE-KtpYztEj9Tn-dtzWgIQ9d-QPW9fMs0pjTNhkaRFhUYBvE4wubVPEEsIXuLtcLWQ0UzIIWPOMh8374PuMXNRJZiw0aA__&Key-Pair-Id=APKAIE5G5CRDK6RD3PGA
Abstract

Motivation

MicroRNAs form an important class of RNA regulators that has been studied extensively. The miRBase and Rfam database provide rich, frequently updated information on both pre-miRNAs and their mature forms. These data sources, however, rely on individual data submission and thus are neither complete nor consistent in their coverage across different miRNA families. Quantitative studies of miRNA evolution therefore are difficult or impossible on this basis.

Results

We present here a workflow and a corresponding implementation, MIRfix, that automatically curates miRNA datasets by improving alignments of their precursors, the consistency of the annotation of mature miR and miR* sequence, and the phylogenetic coverage. MIRfix produces alignments that are comparable across families and sets the stage for improved homology search as well as quantitative analyses.

ID 22592
Persistent UFZ Identifier https://www.ufz.de/index.php?en=20939&ufzPublicationIdentifier=22592
Yazbeck, A.M, Stadler, P.F., Tout, K., Fallmann, J. (2019):
Automatic curation of large comparative animal MicroRNA datasets
Bioinformatics 35 (22), 4553 - 4559