mirEX: a platform for comparative exploration of plant pri-miRNA expression data.
mirEX is a comprehensive platform for comparative analysis of primary microRNA expression data. RT-qPCR-based gene expression profiles are stored in a universal and expandable database scheme and wrapped by an intuitive user-friendly interface. A new way of accessing gene expression data in mirEX includes a simple mouse operated querying system and dynamic graphs for data mining analyses. In contrast to other publicly available databases, the mirEX interface allows a simultaneous comparison of expression levels between various microRNA genes in diverse organs and developmental stages. Currently, mirEX integrates information about the expression profile of 190 Arabidopsis thaliana pri-miRNAs in seven different developmental stages: seeds, seedlings and various organs of mature plants. Additionally, by providing RNA structural models, publicly available deep sequencing results, experimental procedure details and careful selection of auxiliary data in the form of web links, mirEX can function as a one-stop solution for Arabidopsis microRNA information. A web-based mirEX interface can be accessed at http://bioinfo.amu.edu.pl/mirex.
Department of Gene Expression, Faculty of Biology, Institute of Molecular Biology and Biotechnology, Adam Mickiewicz University, Umultowska 89, 61-614 Poznan, Poland.
Dawid
D
Bielewicz
Jakub
J
Dolata
Andrzej
A
Zielezinski
Sylwia
S
Alaba
Bogna
B
Szarzynska
Michal W
MW
Szczesniak
Artur
A
Jarmolowski
Zofia
Z
Szweykowska-Kulinska
Wojciech M
WM
Karlowski
D017360:Arabidopsis / Q000235:genetics*; D057225:Data Mining; D030561:Databases, Nucleic Acid; D020869:Gene Expression Profiling; D020407:Internet; D035683:MicroRNAs / Q000378:metabolism*; D018749:RNA, Plant / Q000378:metabolism*; D012984:Software; D014584:User-Computer Interface
D035683:MicroRNAs; D018749:RNA, Plant