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Argonaute Proteins

Methods and Protocols

  • Book
  • © 2018

Overview

Editors:
  1. Katsutomo Okamura

    1. Temasek Lifesciences Laboratory, National University of Singapore, Singapore, Singapore

    View editor publications

    You can also search for this editor in PubMed   Google Scholar

  2. Kotaro Nakanishi

    1. Department of Chemistry and Biochemistry, The Ohio State University, Columbus, USA

    View editor publications

    You can also search for this editor in PubMed   Google Scholar

  • Includes cutting-edge methods and protocols
  • Provides step-by-step detail essential for reproducible results
  • Contains key notes and implementation advice from the experts
  • Includes supplementary material: sn.pub/extras

Part of the book series: Methods in Molecular Biology (MIMB, volume 1680)

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Table of contents (16 protocols)

  1. Front Matter

    Pages i-xiii
    Download chapter PDF

  2. Cloning and Identification of Recombinant Argonaute-Bound Small RNAs Using Next-Generation Sequencing

    • Pooja Gangras, Daniel M. Dayeh, Justin W. Mabin, Kotaro Nakanishi, Guramrit Singh
    Pages 1-28

  3. Quantification of miRNAs Co-Immunoprecipitated with Argonaute Proteins Using SYBR Green-Based qRT-PCR

    • Hong-Duc Phan, Junan Li, Ming Poi, Kotaro Nakanishi
    Pages 29-40

  4. Gateway to Understanding Argonaute Loading of Single-Stranded RNAs: Preparation of Deep Sequencing Libraries with In Vitro Loading Samples

    • Eling Goh, Katsutomo Okamura
    Pages 41-63

  5. Dumbbell-PCR for Discriminative Quantification of a Small RNA Variant

    • Megumi Shigematsu, Shozo Honda, Yohei Kirino
    Pages 65-73

  6. MicroRNA Detection by Whole-Mount In Situ Hybridization in C. elegans

    • Yoshiki Andachi, Yuji Kohara
    Pages 75-86

  7. cCLIP-Seq: Retrieval of Chimeric Reads from HITS-CLIP (CLIP-Seq) Libraries

    • Panagiotis Alexiou, Manolis Maragkakis, Zissimos Mourelatos, Anastassios Vourekas
    Pages 87-100

  8. Kinetic Analysis of Small Silencing RNA Production by Human and Drosophila Dicer Enzymes In Vitro

    • Susan E. Liao, Ryuya Fukunaga
    Pages 101-121

  9. Nucleic Acid-Binding Assay of Argonaute Protein Using Fluorescence Polarization

    • Tomohiro Miyoshi
    Pages 123-129

  10. Reconstitution of RNA Interference Machinery

    • Shintaro Iwasaki, Yukihide Tomari
    Pages 131-143

  11. Single-Molecule Analysis for RISC Assembly and Target Cleavage

    • Hiroshi M. Sasaki, Hisashi Tadakuma, Yukihide Tomari
    Pages 145-164

  12. Profiling Open Chromatin Structure in the Ovarian Somatic Cells Using ATAC-seq

    • Kensaku Murano, Yuka W. Iwasaki, Haruhiko Siomi
    Pages 165-177

  13. Assessing miR-451 Activity and Its Role in Erythropoiesis

    • Dmitry A. Kretov, Andrew M. Shafik, Daniel Cifuentes
    Pages 179-190

  14. Functional Analysis of MicroRNAs in Neurogenesis During Mouse Cortical Development

    • Wei Zhang, Xiaoxia Zeng, Li Zeng
    Pages 191-203

  15. Cellular Approaches in Investigating Argonaute2-Dependent RNA Silencing

    • Cai Zhang, Joonbae Seo, Takahisa Nakamura
    Pages 205-215

  16. Genomic Tagging of AGO1 Using CRISPR/Cas9-Mediated Homologous Recombination

    • Sanjay Ghosh, Ji-Long Liu
    Pages 217-235

  17. Accurate Profiling and Quantification of tRNA Fragments from RNA-Seq Data: A Vade Mecum for MINTmap

    • Phillipe Loher, Aristeidis G. Telonis, Isidore Rigoutsos
    Pages 237-255

  18. Back Matter

    Pages 257-260
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Keywords

About this book

This volume covers methods that analyze various Argonaute proteins from a variety of organisms to help researchers better understand their properties ranging from a molecular level to an organismal level. The chapters in this book explore the following topics: identification and expression analysis of guide nucleic acids and their targets; analysis of biochemical properties of Argonautes; biological functions of Argonautes; and obtaining materials and setting up analysis platforms. Written in the highly successful Methods in Molecular Biology series format, 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.

Cutting-edge and authoritative, Argonaute Proteins: Methods and Protocols is a valuable resource for researchers and scientists looking to expand their knowledge ofArgonaute proteins and their functions.

Editors and Affiliations

  • Temasek Lifesciences Laboratory, National University of Singapore, Singapore, Singapore

    Katsutomo Okamura

  • Department of Chemistry and Biochemistry, The Ohio State University, Columbus, USA

    Kotaro Nakanishi

Bibliographic Information

  • Book Title: Argonaute Proteins

  • Book Subtitle: Methods and Protocols

  • Editors: Katsutomo Okamura, Kotaro Nakanishi

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-4939-7339-2

  • Publisher: Humana New York, NY

  • eBook Packages: Springer Protocols

  • Copyright Information: Springer Science+Business Media LLC 2018

  • Hardcover ISBN: 978-1-4939-7338-5Published: 18 October 2017

  • Softcover ISBN: 978-1-4939-8457-2Published: 22 August 2018

  • eBook ISBN: 978-1-4939-7339-2Published: 13 October 2017

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 1

  • Number of Pages: XIII, 260

  • Number of Illustrations: 11 b/w illustrations, 44 illustrations in colour

  • Topics: Protein Science

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