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Characterization of Long Noncoding RNA-Associated Proteins by RNA-Immunoprecipitation

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Book cover Long Non-Coding RNAs

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1402))

Abstract

With the advances in sequencing technology and transcriptome analysis, it is estimated that up to 75 % of the human genome is transcribed into RNAs. This finding prompted intensive investigations on the biological functions of noncoding RNAs and led to very exciting discoveries of microRNAs as important players in disease pathogenesis and therapeutic applications. Research on long noncoding RNAs (lncRNAs) is in its infancy; yet a broad spectrum of biological regulations has been attributed to lncRNAs. RNA-immunoprecipitation (RNA-IP) is a technique of detecting the association of individual proteins with specific RNA molecules in vivo. It can be used to investigate lncRNA-protein interaction and identify lncRNAs that bind to a protein of interest. Here we describe the protocol of this assay with detailed materials and methods.

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Acknowledgments

This work was supported, in whole or in part, by the Basser Research Center for BRCA, the NIH (R01CA142776, R01CA190415, P50CA083638, P50CA174523), the Ovarian Cancer Research Fund (XH), the Breast Cancer Alliance, Foundation for Women’s Cancer (XH), and the Marsha Rivkin Center for Ovarian Cancer Research.

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    Authors and Affiliations

    1. Center for Research on Reproduction & Women’s Health, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, 19104, USA

      Youyou Zhang, Yi Feng, Zhongyi Hu, Xiaowen Hu & Lin Zhang

    2. Department of Pharmacology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, 19104, USA

      Chao-Xing Yuan

    3. Department of Radiation Oncology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, 19104, USA

      Yi Fan

    4. Department of Obstetrics and Gynecology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, 19104, USA

      Lin Zhang

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    1. Youyou Zhang
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    3. Zhongyi Hu
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    Correspondence to Lin Zhang .

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    Editors and Affiliations

    1. School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, USA

      Yi Feng

    2. School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, USA

      Lin Zhang

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    Zhang, Y. et al. (2016). Characterization of Long Noncoding RNA-Associated Proteins by RNA-Immunoprecipitation. In: Feng, Y., Zhang, L. (eds) Long Non-Coding RNAs. Methods in Molecular Biology, vol 1402. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-3378-5_3

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    • DOI: https://doi.org/10.1007/978-1-4939-3378-5_3

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    • Publisher Name: Humana Press, New York, NY

    • Print ISBN: 978-1-4939-3376-1

    • Online ISBN: 978-1-4939-3378-5

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