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miRNA Biogenesis

Methods and Protocols

  • Book
  • © 2018

Overview

Editors:
  1. Ulf Andersson Vang Ørom

    1. Department of Molecular Biology and Genetics, Aarhus University, Aarhus, Denmark

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  • Includes cutting-edge methods and protocols for the study of miRNA biogenesis
  • Provides step-by-step detail essential for reproducible results
  • Contains key notes and implementation advice from the experts

Part of the book series: Methods in Molecular Biology (MIMB, volume 1823)

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About this book

This detailed volume collects chapters that seek to expand our knowledge of molecular events and extended molecular networks in gene regulation. The contents explore numerous aspects of miRNA biogenesis, a sophisticated series of events that assure a finely tuned regulation of miRNA expression and activity. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls.

Authoritative and practical, miRNA Biogenesis: Methods and Protocols aims to contribute to the further development of knowledge and application of miRNA biogenesis, both in the basic research lab and in the clinic. ​


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Table of contents (17 protocols)

  1. Front Matter

    Pages i-xi
    Download chapter PDF

  2. High-Throughput Characterization of Primary microRNA Transcripts

    • Tsung-Cheng Chang, Joshua T. Mendell
    Pages 1-9

  3. Identifying Pri-miRNA Transcription Start Sites

    • Georgios Georgakilas, Nikos Perdikopanis, Artemis G. Hatzigeorgiou
    Pages 11-31

  4. Metabolic Pulse-Chase RNA Labeling for pri-miRNA Processing Dynamics

    • Annita Louloupi, Ulf Andersson Vang Ørom
    Pages 33-41

  5. In Vitro System for Coupling RNAP II Transcription to Primary microRNA Processing and a Three-Way System for RNAP II Transcription/Splicing/microRNA Processing

    • Shanye Yin, Alexander Iocolano, Yong Yu, Jaya Gangopadhyay, Robin Reed
    Pages 43-50

  6. Purification of Microprocessor-Associated Factors

    • Ross A. Cordiner, Sara Macias
    Pages 51-62

  7. Inhibiting Pri-miRNA Processing with Target Site Blockers

    • Annita Louloupi, Ulf Andersson Vang Ørom
    Pages 63-68

  8. MicroRNA Analysis Using the Quantitative Real-Time PCR Reaction

    • Marta Kotlarek, Anna Kubiak, Krystian Jażdżewski, Anna Wójcicka
    Pages 69-85

  9. MicroRNA Analysis Using Next-Generation Sequencing

    • Monika Kolanowska, Anna Kubiak, Krystian Jażdżewski, Anna Wójcicka
    Pages 87-101

  10. Identification of microRNA Precursor-Associated Proteins

    • Thomas Treiber, Nora Treiber, Gunter Meister
    Pages 103-114

  11. Analysis of 3′ End Modifications in microRNAs by High-Throughput Sequencing

    • Madalena M. Reimão-Pinto, Angela M. Rodrigues-Viana, Stefan L. Ameres
    Pages 115-139

  12. Uncovering the Stability of Mature miRNAs by 4-Thio-Uridine Metabolic Labeling

    • Matteo J. Marzi, Francesco Nicassio
    Pages 141-152

  13. Detection of microRNA-Target Interactions by Chimera PCR (ChimP)

    • James P. Broughton, Amy E. Pasquinelli
    Pages 153-165

  14. High-Quality Overlapping Paired-End Reads for the Detection of A-to-I Editing on Small RNA

    • Josephine Galipon, Rintaro Ishii, Soh Ishiguro, Yutaka Suzuki, Shinji Kondo, Mariko Okada-Hatakeyama et al.
    Pages 167-183

  15. Targeting miRNA for Therapeutics Using a Micronome Based Method for Identification of miRNA-mRNA Pairs and Validation of Key Regulator miRNA

    • Parveen Bansal, Ashish Kumar, Sudhir Chandna, Malika Arora, Renu Bansal
    Pages 185-195

  16. Method for Detection of miRNAs in Non-Model Organisms with Unreported Database

    • Parveen Bansal, Ashish Kumar, Sudhir Chandna, Malika Arora, Renu Bansal
    Pages 197-208

  17. Detection and Verification of Mammalian Mirtrons by Northern Blotting

    • Mohammad Farid Zia, Alex S. Flynt
    Pages 209-219

  18. Detecting Agotrons in Ago CLIPseq Data

    • Thomas B. Hansen
    Pages 221-232

  19. Back Matter

    Pages 233-238
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Editors and Affiliations

  • Department of Molecular Biology and Genetics, Aarhus University, Aarhus, Denmark

    Ulf Andersson Vang Ørom

Bibliographic Information

  • Book Title: miRNA Biogenesis

  • Book Subtitle: Methods and Protocols

  • Editors: Ulf Andersson Vang Ørom

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-4939-8624-8

  • Publisher: Springer New York, NY

  • eBook Packages: Springer Protocols

  • Copyright Information: Springer Science+Business Media, LLC, part of Springer Nature 2018

  • Hardcover ISBN: 978-1-4939-8623-1Published: 30 June 2018

  • Softcover ISBN: 978-1-4939-9345-1Published: 10 December 2019

  • eBook ISBN: 978-1-4939-8624-8Published: 29 June 2018

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 1

  • Number of Pages: XI, 238

  • Number of Illustrations: 13 b/w illustrations, 45 illustrations in colour

  • Topics: Human Genetics

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