Transcriptome-wide identification of RNA binding sites by CLIP-seq
Transcriptome-wide identification of RNA binding sites by CLIP-seq
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DOI：
10.1016/j.ymeth.2013.03.022
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发表时间：
2013-09-01
期刊：
影响因子：
4.8
通讯作者：
Le Hir, Helve
中科院分区：
文献类型：
--
作者：
Murigneux, Valentine;Sauliere, Jerome;Le Hir, Helve
在转录组范围内研究蛋白质- rna相互作用的一个新兴策略是CLIP-seq（交联和免疫沉淀，然后是高通量测序）。我们结合CLIP-seq和mRNA-seq鉴定了eIF4AIII在人细胞中的直接RNA结合位点。这种RNA解旋酶是外显子连接复合体（EJC）的核心组成部分，EJC是一种在后生动物中与剪接mrna相关的多功能蛋白质复合体。在这里，我们描述了CLIP协议的连续步骤以及我们用于绘制eIF4AIII在人类rna上的生理靶点的计算工具和策略。(C) 2013爱思唯尔公司版权所有。
An emergent strategy for the transcriptome-wide study of protein-RNA interactions is CLIP-seq (cross-linking and immunoprecipitation followed by high-throughput sequencing). We combined CLIP-seq and mRNA-seq to identify direct RNA binding sites of eIF4AIII in human cells. This RNA helicase is a core constituant of the Exon Junction Complex (EJC), a multifunctional protein complex associated with spliced mRNAs in metazoans. Here, we describe the successive steps of the CLIP protocol and the computational tools and strategies we employed to map the physiological targets of eIF4AIII on human RNAs. (C) 2013 Elsevier Inc. All rights reserved.