mirEX 2.0 - an integrated environment for expression profiling of plant microRNAs

BMC Plant Biology

Database

Andrzej Zielezinski¹  Sylwia Alaba¹  Wojciech M. Karlowski¹  Zofia Szweykowska-Kulinska²  Artur Jarmolowski³  Dawid Bielewicz³  Alicja Lakomiak³  Katarzyna Kruszka³  Halina Pietrykowska³  Agata Stepien³  Andrzej Pacak³  Izabela Sierocka³  Katarzyna Knop³  Lukasz Sobkowiak³  Jakub Dolata³  Aleksandra Swida-Barteczka³ 

[1] Department of Computational Biology, Institute of Molecular Biology and Biotechnology, Faculty of Biology, Adam Mickiewicz University, Umultowska 89, 61-614, Poznan, Poland;Department of Computational Biology, Institute of Molecular Biology and Biotechnology, Faculty of Biology, Adam Mickiewicz University, Umultowska 89, 61-614, Poznan, Poland;Department of Gene Expression, Institute of Molecular Biology and Biotechnology, Faculty of Biology, Adam Mickiewicz University, Umultowska 89, 61-614, Poznan, Poland;Department of Gene Expression, Institute of Molecular Biology and Biotechnology, Faculty of Biology, Adam Mickiewicz University, Umultowska 89, 61-614, Poznan, Poland;

关键词: microRNA;    Gene expression;    Database;    Arabidopsis thaliana;    Hordeum vulgare;    Pellia endiviifolia;   

DOI  :  10.1186/s12870-015-0533-2

 received in 2015-04-22, accepted in 2015-05-23,  发布年份 2015

来源: Springer

【 摘 要 】

BackgroundMicroRNAs are the key post-transcriptional regulators of gene expression in development and stress responses. Thus, precisely quantifying the level of each particular microRNA is of utmost importance when studying the biology of any organism.DescriptionThe mirEX 2.0 web portal (http://www.combio.pl/mirex) provides a comprehensive platform for the exploration of microRNA expression data based on quantitative Real Time PCR and NGS sequencing experiments, covering various developmental stages, from wild-type to mutant plants. The portal includes mature and pri-miRNA expression levels detected in three plant species (Arabidopsis thaliana, Hordeum vulgare and Pellia endiviifolia), and in A. thaliana miRNA biogenesis pathway mutants. In total, the database contains information about the expression of 461 miRNAs representing 268 families. The data can be explored through the use of advanced web tools, including (i) a graphical query builder system allowing a combination of any given species, developmental stages and tissues, (ii) a modular presentation of the results in the form of thematic windows, and (iii) a number of user-friendly utilities such as a community-building discussion system and extensive tutorial documentation (e.g., tooltips, exemplary videos and presentations). All data contained within the mirEX 2.0 database can be downloaded for use in further applications in a context-based way from the result windows or from a dedicated web page.ConclusionsThe mirEX 2.0 portal provides the plant research community with easily accessible data and powerful tools for application in multi-conditioned analyses of miRNA expression from important plant species in different biological and developmental backgrounds.

【 授权许可】

Unknown   
© Zielezinski et al. 2015. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.