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iCLIP – Transcriptome-wide Mapping of Protein-RNA Interactions with Individual Nucleotide Resolution
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April 30, 2011
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The spatial arrangement of RNA-binding proteins on a transcript is a key determinant of post-transcriptional regulation. Therefore, we developed individual-nucleotide resolution UV crosslinking and immunoprecipitation (iCLIP) that allows precise genome-wide mapping of the binding sites of an RNA-binding protein.
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ICLIPTranscriptome-wide MappingProtein-RNA InteractionsIndividual Nucleotide ResolutionRNA-binding ProteinsPost-transcriptional RegulationPositional InformationBinding SitesBiochemical MethodsNative Cellular ContextAffinity PurificationImmunoprecipitationDifferential DisplayMicroarray AnalysisRIP-CHIPIndirect InteractionsNon-physiological InteractionsCLIP (UV Cross-linking And Immunoprecipitation)UV Cross-linkingRigorous Purification SchemesDenaturing Polyacrylamide Gel ElectrophoresisHigh-throughput Sequencing TechnologiesHITS-CLIPCLIP-seqPAR-CLIPPhotoreactive Ribonucleoside Analogs
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Konig, J., Zarnack, K., Rot, G., Curk, T., Kayikci, M., Zupan, B., Turner, D. J., Luscombe, N. M., Ule, J. iCLIP - Transcriptome-wide Mapping of Protein-RNA Interactions with Individual Nucleotide Resolution. J. Vis. Exp. (50), e2638, doi:10.3791/2638 (2011).
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