MAGIA²: from miRNA and genes expression data integrative analysis to microRNA-transcription factor mixed regulatory circuits (2012 update).
MAGIA²: from miRNA and genes expression data integrative analysis to microRNA-transcription factor mixed regulatory circuits (2012 update).
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DOI：
10.1093/nar/gks460
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发表时间：
2012-07
影响因子：
14.9
通讯作者：
Romualdi C
中科院分区：
文献类型：
--
作者：
Bisognin A;Sales G;Coppe A;Bortoluzzi S;Romualdi C
MAGIA 2（http：//gencomp.bio.unipd.it/taga2）是MAGIA网络工具的更新、扩展和演变。它致力于计算机靶点预测、microRNA（miRNA）和基因表达数据的综合分析，用于重建转录后调控网络。miRNA是几个关键生物学和病理学过程的基本转录后调节因子。由于miRNA通过靶降解发挥作用，因此预期它们的表达谱与靶基因的表达谱呈负相关。目标预测算法的低特异性使得集成方法成为目标预测细化的有趣解决方案。MAGIA2执行这种集成方法，支持不同的关联措施，多种生物和几乎所有的目标预测算法。然而，miRNAs的活性应该被视为一个更复杂的场景的一部分，其中调控元件及其相互作用产生了一个高度连接的网络，基因表达谱是不同水平调控的结果。更新后的MAGIA2试图通过重建涉及miRNA或转录因子（TF）作为调节因子的混合调节回路来剖析这种复杂性。鉴定了两种类型的回路：（i）调节miRNA及其靶标两者的TF和（ii）调节TF及其靶标两者的miRNA。
MAGIA2 (http://gencomp.bio.unipd.it/magia2) is an update, extension and evolution of the MAGIA web tool. It is dedicated to the integrated analysis of in silico target prediction, microRNA (miRNA) and gene expression data for the reconstruction of post-transcriptional regulatory networks. miRNAs are fundamental post-transcriptional regulators of several key biological and pathological processes. As miRNAs act prevalently through target degradation, their expression profiles are expected to be inversely correlated to those of the target genes. Low specificity of target prediction algorithms makes integration approaches an interesting solution for target prediction refinement. MAGIA2 performs this integrative approach supporting different association measures, multiple organisms and almost all target predictions algorithms. Nevertheless, miRNAs activity should be viewed as part of a more complex scenario where regulatory elements and their interactors generate a highly connected network and where gene expression profiles are the result of different levels of regulation. The updated MAGIA2 tries to dissect this complexity by reconstructing mixed regulatory circuits involving either miRNA or transcription factor (TF) as regulators. Two types of circuits are identified: (i) a TF that regulates both a miRNA and its target and (ii) a miRNA that regulates both a TF and its target.
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