miRFANs: an integrated database for Arabidopsis thaliana microRNA function annotations.

BMC Plant Biology
Hui LiuJihong Guan

Abstract

Plant microRNAs (miRNAs) have been revealed to play important roles in developmental control, hormone secretion, cell differentiation and proliferation, and response to environmental stresses. However, our knowledge about the regulatory mechanisms and functions of miRNAs remains very limited. The main difficulties lie in two aspects. On one hand, the number of experimentally validated miRNA targets is very limited and the predicted targets often include many false positives, which constrains us to reveal the functions of miRNAs. On the other hand, the regulation of miRNAs is known to be spatio-temporally specific, which increases the difficulty for us to understand the regulatory mechanisms of miRNAs. In this paper we present miRFANs, an online database for Arabidopsis thalianamiRNA function annotations. We integrated various type of datasets, including miRNA-target interactions, transcription factor (TF) and their targets, expression profiles, genomic annotations and pathways, into a comprehensive database, and developed various statistical and mining tools, together with a user-friendly web interface. For each miRNA target predicted by psRNATarget, TargetAlign and UEA target-finder, or recorded in TarBase and miRTarBase, the ...Continue Reading

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Nov 30, 2012·Nucleic Acids Research·Sooyoung ChoSanghyuk Lee
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Software Mentioned

miRNEST
ModelRight
Struts2
Highcharts
miRAnalyzer
BX
Cytoscape Web d
Jquery
psRNATarget
Microsoft Internet Explorer

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