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RNA Amplification and Analysis

Methods and Protocols

  • Book
  • © 2024

Overview

Editors:
  1. Mekbib Astatke

    1. Applied Biology Section, Johns Hopkins University Applied Physic, Laurel, USA

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  • Includes cutting-edge methods and protocols
  • 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 2822)

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About this book

This volume provides methods to analyze RNA and gain insight to a number of critical cellular functions. Chapters detail RNA isolation and enrichment, RNA amplification and detection, RNA sequencing, analysis of RNA modification, RNA delivery approaches, and analysis of RNA binding and catalytic activity. 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 key tips on troubleshooting and avoiding known pitfalls.

 

Authoritative and cutting-edge, RNA Amplifications and Analysis: Methods and Protocols aims to present researchers with cutting-edge technologies with detailed explanations of critical steps, while providing a clear understanding of the overall protocol. 

Keywords

Table of contents (28 protocols)

  1. Front Matter

    Pages i-xv
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  2. RNA Isolation and Enrichment Techniques

    1. Front Matter

      Pages 1-1
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    2. RNA Isolation from Human Stem Cell–Derived Retinal Organoids

      • Casey J. Keuthan, Donald J. Zack
      Pages 3-11

    3. Next-Generation Sequencing Application: A Systematic Approach for High-Quality RNA Isolation from Skeletal Muscles

      • Ignacio Hernandez-Morato, Angela M. Kemfack
      Pages 13-24

    4. Ultrasound-Induced Enrichment of Ultra-Trace miRNA Biosensing in Nanoliter Samples

      • Yong Luo, Tailin Xu
      Pages 25-36

  3. RNA Amplification and Detection Approaches

    1. Front Matter

      Pages 37-37
      Download chapter PDF

    2. Direct Detection of SARS-CoV-2 RNA in Saliva with Colorimetric RT-LAMP

      • Catarina Amaral, Catarina Pimentel
      Pages 39-50

    3. NASBA Coupled to Paper Microfluidics for RNA Detection

      • Olivia Tiburzi, Stergios Papadakis, Konstantinos Gerasopoulos, Mekbib Astatke
      Pages 51-64

    4. Single-Cell Imaging of mRNA by Target RNA-Initiated RCA

      • Xiaojun Ren, Yifan Wu, Ruijie Deng, Jinghong Li
      Pages 65-75

    5. Detection of Foodborne RNA Viruses by Reverse Transcriptase Droplet Digital PCR

      • Jonathon Cecillon, Neda Nasheri
      Pages 77-86

    6. Single-Molecule RNA Imaging in Live Cells with an Avidity-Based Fluorescent Light-Up Aptamer biRhoBAST

      • Bastian Bühler, Murat Sunbul
      Pages 87-100

    7. Assessing MicroRNA Profiles from Low Concentration Extracellular Vesicle RNA Utilizing NanoString nCounter Technology

      • Rachel E. Crossland, Jamie Macdonald, Xiao-nong Wang
      Pages 101-123

    8. Liquid and Solid Hybridization Methods to Detect RNAs

      • Waqar Ahmad, Jasmin Baby, Bushra Gull, Farah Mustafa
      Pages 125-141

    9. Visualization of Individual RNA Molecules by Proximity Ligation-Based Chromogenic In Situ Hybridization Assay

      • Xueqian Xia, Meng Jiang, Chen Lin, Rongqin Ke
      Pages 143-156

    10. Quantum Dots-Based Protocols for the Detection of RNAs

      • Pooja Ratre, Suresh Thareja, Pradyumna Kumar Mishra
      Pages 157-173

    11. RNA Analysis Using Immunoassay Detection Format

      • Mekbib Astatke, Olivia Tiburzi, Amy Connolly, Matthew L. Robinson
      Pages 175-186

    12. Fluorescent Techniques for RNA Detection in Nanoparticles

      • Simone P. Carneiro, Joschka T. Müller, Olivia M. Merkel
      Pages 187-203

  4. RNA Sequencing Methods and Computational Tools for RNA-Seq Analysis

    1. Front Matter

      Pages 205-205
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    2. Sequencing: 10X Genomics 3′ HT Assay for Gene Expression

      • Linda D. Orzolek
      Pages 207-226

    3. Single-Cell Sequencing of 3′ RNA Transcripts

      • Claire M. Bell
      Pages 227-243
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Editors and Affiliations

  • Applied Biology Section, Johns Hopkins University Applied Physic, Laurel, USA

    Mekbib Astatke

Bibliographic Information

  • Book Title: RNA Amplification and Analysis

  • Book Subtitle: Methods and Protocols

  • Editors: Mekbib Astatke

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-0716-3918-4

  • Publisher: Humana New York, NY

  • eBook Packages: Springer Protocols

  • Copyright Information: JHU Applied Physics Laboratory 2024

  • Hardcover ISBN: 978-1-0716-3917-7Published: 23 June 2024

  • Softcover ISBN: 978-1-0716-3920-7Due: 07 July 2025

  • eBook ISBN: 978-1-0716-3918-4Published: 22 June 2024

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 1

  • Number of Pages: XV, 473

  • Number of Illustrations: 19 b/w illustrations, 77 illustrations in colour

  • Topics: Genetics and Genomics

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