期刊
GENOME BIOLOGY
卷 15, 期 1, 页码 -出版社
BIOMED CENTRAL LTD
DOI: 10.1186/gb-2014-15-1-r16
关键词
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资金
- JSPS [22240031, 23710231, 25134701, 25870190]
- Grants-in-Aid for Scientific Research [25870190] Funding Source: KAKEN
RNA-binding proteins (RBPs) bind to their target RNA molecules by recognizing specific RNA sequences and structural contexts. The development of CLIP-seq and related protocols has made it possible to exhaustively identify RNA fragments that bind to RBPs. However, no efficient bioinformatics method exists to reveal the structural specificities of RBP-RNA interactions using these data. We present CapR, an efficient algorithm that calculates the probability that each RNA base position is located within each secondary structural context. Using CapR, we demonstrate that several RBPs bind to their target RNA molecules under specific structural contexts. CapR is available at https://sites.google.com/site/fukunagatsu/software/capr.
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