RNA-Protein Interactions Analysis

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  • RNA-Protein Interactions Analysis

    RNA-protein interactions can have a profound effect on controlling the spatial and temporal localization of mRNA within a cell and non-coding RNA function. With years of industry experience in mRNA research, Creative Biolabs has developed a variety of methods to comprehensively define RNA-protein interactions. We offer a comprehensive range of RNA-protein interactions analysis services characterized by quality, predictability, delivery, and customization.

    RNA-Protein Interaction Analysis Strategies

    RNA and proteins are interconnected biomolecules that can influence the fate of each other and function through physical interactions. Therefore, the importance of RNA-protein interactions in controlling many aspects of gene regulation is increasingly appreciated. Technologies to examine RNA-protein interaction have been developed from DNA-protein interaction technologies.

    Tools for the characterization of RNA-protein interactions. Fig.1 Tools for the characterization of RNA-protein interactions. (Marchese, 2016)
    • RIP-seq for RNA-Protein Interactions Analysis
    • RIP (RNA immunoprecipitation) can be coupled to microarray (RIP-chip) or sequencing (RIP-seq) to identify the association of RNA-binding proteins (RBPs) with specific RNA. RIP-seq is a revolutionary technology to map the sites at which proteins are bound to the RNA and provides a single-base resolution of protein-bound RNA at the genome-wide level.

    • CLIP-seq for RNA-Protein Interactions Analysis
    • Cross-linking immunoprecipitation (CLIP) involves UV cross-linking followed by purification of the protein of interest and identification of the bound RNAs. CLIP combines with high-throughput sequencing (HITS) forming the CLIP-seq which is an increasingly popular technique to study protein-RNA interactions.

    • ChIRP for RNA-Protein Interactions Analysis
    • Chromatin isolation by RNA purification (ChIRP) usually uses formaldehyde to cross-link RNA to proteins. It can be combined with deep sequencing and allow unbiased high-throughput discovery of RNA-bound DNA and proteins. The key turnaround was the use of short oligonucleotide probes tiling the length of an RNA of interest.

    • RAP for RNA-Protein Interactions Analysis
    • RNA antisense purification (RAP), often coupled with mass spectrometry (MS), is a method (RAP-MS) that enables the identification of direct and specific protein interaction partners of a specific RNA molecule. Notably, RAP-MS can provide a list of high-confidence protein interactors, because it uses direct RNA-protein cross-linking method coupled with highly denaturing purification conditions.

    • mRNA Interactome Capture
    • RNA interactome capture (RIC), based on the irradiation of living cells with UV light to generate covalent bonds between RNA and proteins, has emerged as a powerful tool to identify and study RBPs. It is a useful method for the proteome-wide identification of RBPs.

    RNA-RBPs interactions are key to cellular homeostasis, thus their identification and the understanding of their mechanisms of action and regulation are key to unraveling physiology and disease. As an undoubted leader in mRNA services, Creative Biolabs has developed a delicate platform for RNA-protein interactions analysis. We provide flexible and one-stop services for your RNA-protein interaction project, and especially, our professional bioinformatics team can offer personalized bioinformatics analysis services to accelerate your project progress. If you are interested in our services, please feel free to contact us.


    1. Marchese, D.; et al. Advances in the characterization of RNA-binding proteins. Wiley Interdisciplinary Reviews: RNA. 2016, 7(6): 793-810.
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