Analysis of CLIP and iCLIP methods for nucleotide-resolution studies of protein-RNA interactionsReport as inadecuate




Analysis of CLIP and iCLIP methods for nucleotide-resolution studies of protein-RNA interactions - Download this document for free, or read online. Document in PDF available to download.

Publication Date: 2012-08-03

Language: English

Type: Article

Metadata: Show full item record

Citation: Sugimoto, Y., König, J., Hussain, S., Zupan, B., Curk, T., Frye, M., & Ule, J. (2012). Analysis of CLIP and iCLIP methods for nucleotide-resolution studies of protein-RNA interactions.

Description: RIGHTS : This article is licensed under the BioMed Central licence at http://www.biomedcentral.com/about/license which is similar to the 'Creative Commons Attribution Licence'. In brief you may : copy, distribute, and display the work; make derivative works; or make commercial use of the work - under the following conditions: the original author must be given credit; for any reuse or distribution, it must be made clear to others what the license terms of this work are.

Abstract: Abstract UV cross-linking and immunoprecipitation (CLIP) and individual-nucleotide resolution CLIP (iCLIP) are methods to study protein-RNA interactions in untreated cells and tissues. Here, we analyzed six published and two novel data sets to confirm that both methods identify protein-RNA cross-link sites, and to identify a slight uridine preference of UV-C-induced cross-linking. Comparing Nova CLIP and iCLIP data revealed that cDNA deletions have a preference for TTT motifs, whereas iCLIP cDNA truncations are more likely to identify clusters of YCAY motifs as the primary Nova binding sites. In conclusion, we demonstrate how each method impacts the analysis of protein-RNA binding specificity.

Identifiers:

This record's URL: http://dx.doi.org/10.1186/gb-2012-13-8-r67http://www.dspace.cam.ac.uk/handle/1810/244093

Rights:

Rights Holder: Yoichiro Sugimoto et al.; licensee BioMed Central Ltd.





Author: Sugimoto, YoichiroKönig, JulianHussain, ShobbirZupan, BlažCurk, TomažFrye, MichaelaUle, Jernej

Source: https://www.repository.cam.ac.uk/handle/1810/244093



DOWNLOAD PDF




Related documents