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

  • Youyou Zhang
  • Yi Feng
  • Zhongyi Hu
  • Xiaowen Hu
  • Chao-Xing Yuan
  • Yi Fan
  • Lin ZhangEmail author
Part of the Methods in Molecular Biology book series (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.

Key words

Long noncoding RNA RNA-binding protein RNA-immunoprecipitation 

Notes

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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Copyright information

© Springer Science+Business Media New York 2016

Authors and Affiliations

  • Youyou Zhang
    • 1
  • Yi Feng
    • 1
  • Zhongyi Hu
    • 1
  • Xiaowen Hu
    • 1
  • Chao-Xing Yuan
    • 2
  • Yi Fan
    • 3
  • Lin Zhang
    • 1
    • 4
    Email author
  1. 1.Center for Research on Reproduction & Women’s Health, Perelman School of MedicineUniversity of PennsylvaniaPhiladelphiaUSA
  2. 2.Department of Pharmacology, Perelman School of MedicineUniversity of PennsylvaniaPhiladelphiaUSA
  3. 3.Department of Radiation Oncology, Perelman School of MedicineUniversity of PennsylvaniaPhiladelphiaUSA
  4. 4.Department of Obstetrics and Gynecology, Perelman School of MedicineUniversity of PennsylvaniaPhiladelphiaUSA

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