RAIN: RNA-protein Association and Interaction Networks.
RAIN: RNA-protein Association and Interaction Networks.
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DOI：
10.1093/database/baw167
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发表时间：
2017
期刊：
影响因子：
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通讯作者：
Gorodkin J
中科院分区：
文献类型：
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作者：
Junge A;Refsgaard JC;Garde C;Pan X;Santos A;Alkan F;Anthon C;von Mering C;Workman CT;Jensen LJ;Gorodkin J
蛋白质关联网络可以从一系列资源中推断出来，包括实验数据，文献挖掘和计算预测。这些类型的证据也出现在非编码RNA（ncRNA）中。然而，由于数据的异质性，将ncRNA整合到蛋白质关联网络中是具有挑战性的。在这里，我们提出了一个ncRNA-RNA和ncRNA-protein相互作用的数据库及其与蛋白质-蛋白质相互作用的STRING数据库的整合。这些ncRNA协会涵盖四种生物，并已建立从策划的例子，实验数据，相互作用的预测和自动文献挖掘。RAIN使用综合评分方案为每个交互分配置信度分数。我们证明了RAIN在推断ncRNA相互作用方面优于潜在的microRNA-靶标预测。RAIN可以通过一个易于访问的Web界面进行操作，所有交互数据都可以下载。数据库URL：http://rth.dk/resources/rain
Protein association networks can be inferred from a range of resources including experimental data, literature mining and computational predictions. These types of evidence are emerging for non-coding RNAs (ncRNAs) as well. However, integration of ncRNAs into protein association networks is challenging due to data heterogeneity. Here, we present a database of ncRNA–RNA and ncRNA–protein interactions and its integration with the STRING database of protein–protein interactions. These ncRNA associations cover four organisms and have been established from curated examples, experimental data, interaction predictions and automatic literature mining. RAIN uses an integrative scoring scheme to assign a confidence score to each interaction. We demonstrate that RAIN outperforms the underlying microRNA-target predictions in inferring ncRNA interactions. RAIN can be operated through an easily accessible web interface and all interaction data can be downloaded. Database URL: http://rth.dk/resources/rain