![]() sCLIP-an integrated platform to study RNA-protein interactomes in biomedical research: identification of CSTF2tau in alternative processing of small nuclear RNAs. Kargapolova Y., Levin M., Lackner K., Danckwardt S. irCLIP platform for efficient characterization of protein-RNA interactions. Zarnegar B.J., Flynn R.A., Shen Y., Do B.T., Chang H.Y., Khavari P.A. iCLIP reveals the function of hnRNP particles in splicing at individual nucleotide resolution. Konig J., Zarnack K., Rot G., Curk T., Kayikci M., Zupan B., Turner D.J., Luscombe N.M., Ule J. ![]() ![]() Individual nucleotide resolution UV cross-linking and immunoprecipitation (iCLIP) to determine protein-RNA interactions. ’Advances in CLIP technologies for studies of protein-RNA interactions. Termed quick-irCLIP, our protocol circumvents confounding steps, can be completed in less than three days, and is capable of interrogating protein-RNA interactions at single nucleotide resolution.ĬLIP Protein-RNA interaction Quick-irCLIP – rapid infrared adaptor based individual nucleotide resolution UV cross-linking and immunoprecipitation RNA RNA-binding protein iCLIP irCLIP quick-irCLIP. Here, we describe a rapid and technically simple method based upon individual nucleotide resolution CLIP (iCLIP) and infrared CLIP (irCLIP). To identify the RNAs bound by a given RBP, cross-linking and immunoprecipitation (CLIP) and its iterations have been widely utilized, but these approaches can be complex, labor-intensive, and time consuming. Therefore, as interest in non-coding RNAs continues to expand, refining the techniques capable of probing protein-RNA interactions will prove ever more valuable in the characterization of these molecules. Here we describe an improved individual nucleotide resolution CLIP protocol (iiCLIP), which can be completed within 4 days from UV crosslinking to libraries for sequencing. RNA-binding proteins (RBPs) are instrumental in the biochemical processing and physiological functioning of non-coding RNAs.
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