catRAPID signature: identification of ribonucleoproteins and RNA-binding regions.
catRAPID signature: identification of ribonucleoproteins and RNA-binding regions.
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DOI：
10.1093/bioinformatics/btv629
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发表时间：
2016-03-01
期刊：
影响因子：
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通讯作者：
Tartaglia GG
中科院分区：
文献类型：
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作者：
Livi CM;Klus P;Delli Ponti R;Tartaglia GG
动机：最近的技术进展表明，意想不到的大量蛋白质与转录本相互作用，即使RNA结合结构域没有注释。我们引入catRAPID签名识别核糖核蛋白的基础上的物理化学特征，而不是序列相似性搜索。该算法在人类蛋白质上训练并在模型生物体上测试，计算总体RNA结合倾向，然后预测RNA结合区域。catRAPID签名在RNA结合蛋白的识别和非经典RNA结合区域的检测方面优于其他算法。结果在网页上可视化，可以下载或转发到catRAPID omics用于预测RNA靶点。 可用性和实施：catRAPID签名可在http://s.tartaglialab.com/new_submission/signature上访问。 联系方式：gian. crg.es或gian@tartaglialab.com补充信息：补充数据可在生物信息学在线获得。
Motivation: Recent technological advances revealed that an unexpected large number of proteins interact with transcripts even if the RNA-binding domains are not annotated. We introduce catRAPID signature to identify ribonucleoproteins based on physico-chemical features instead of sequence similarity searches. The algorithm, trained on human proteins and tested on model organisms, calculates the overall RNA-binding propensity followed by the prediction of RNA-binding regions. catRAPID signature outperforms other algorithms in the identification of RNA-binding proteins and detection of non-classical RNA-binding regions. Results are visualized on a webpage and can be downloaded or forwarded to catRAPID omics for predictions of RNA targets. Availability and implementation: catRAPID signature can be accessed at http://s.tartaglialab.com/new_submission/signature. Contact: gian.tartaglia@crg.es or gian@tartaglialab.com Supplementary information: Supplementary data are available at Bioinformatics online.