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Long Non-Coding RNAs in Cancer

  • Book
  • © 2021

Overview

Editors:
  1. Alfons Navarro

    1. Faculty of Medicine and Health Sciences, University of Barcelona, Barcelona, Spain

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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 2348)

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Table of contents (24 protocols)

  1. Front Matter

    Pages i-xii
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  2. LncRNA Classification and Utility in Cancer

    1. Front Matter

      Pages 1-1
      Download chapter PDF

    2. LncRNAs and Available Databases

      • Sara Napoli
      Pages 3-26

    3. LncRNA as Cancer Biomarkers

      • Ingram Iaccarino, Wolfram Klapper
      Pages 27-41

  3. LncRNA Profiling and Discovery

    1. Front Matter

      Pages 43-43
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    2. Bioinformatics Pipeline to Analyze lncRNA Arrays

      • Katia Todoerti, Domenica Ronchetti, Martina Manzoni, Elisa Taiana, Antonino Neri, Luca Agnelli
      Pages 45-53

    3. Bioinformatic Pipelines to Analyze lncRNAs RNAseq Data

      • Luca Agnelli, Stefania Bortoluzzi, Giancarlo Pruneri
      Pages 55-69

    4. Single-Cell RNAseq Analysis of lncRNAs

      • Stefano Cagnin, Enrico Alessio, Raphael Severino Bonadio, Gabriele Sales
      Pages 71-90

  4. Validation of Identified LncRNAs

    1. Front Matter

      Pages 91-91
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    2. Measuring lncRNA Expression by Real-Time PCR

      • Sonam Dhamija, Manoj B. Menon
      Pages 93-111

    3. Quantitation of Long Noncoding RNA Using Digital PCR

      • Yu Ota, Irene K. Yan, Tushar Patel
      Pages 113-121

    4. Detection of lncRNA by LNA-Based In Situ Hybridization in Paraffin-Embedded Cancer Cell Spheroids

      • Boye Schnack Nielsen, Jesper Larsen, Jakob Høffding, Son Ly Nhat, Natasha Helleberg Madsen, Trine Møller et al.
      Pages 123-137

  5. Functional Studies To Decipher the Role of Identified LncRNAs

    1. Front Matter

      Pages 139-139
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    2. In Vitro Silencing of lncRNA Expression Using siRNAs

      • Meike S. Thijssen, Jennifer Bintz, Luis Arnes
      Pages 141-156

    3. In Vitro Silencing of lncRNAs Using LNA GapmeRs

      • Elisa Taiana, Vanessa Favasuli, Domenica Ronchetti, Eugenio Morelli, Pierfrancesco Tassone, Giuseppe Viglietto et al.
      Pages 157-166

    4. Methods Used to Make Lipid Nanoparticles to Deliver LNA Gapmers Against lncRNAs into Acute Myeloid Leukemia (AML) Blasts

      • Chun-Tien Kuo, Robert J. Lee, Ramiro Garzon
      Pages 167-174

    5. CRISPR/Cas9 to Silence Long Non-Coding RNAs

      • Ingrid Arctander Rosenlund, George A. Calin, Mihnea P. Dragomir, Erik Knutsen
      Pages 175-187

    6. CRISPR Interference (CRISPRi) and CRISPR Activation (CRISPRa) to Explore the Oncogenic lncRNA Network

      • Eugenio Morelli, Annamaria Gulla’, Nicola Amodio, Elisa Taiana, Antonino Neri, Mariateresa Fulciniti et al.
      Pages 189-204

    7. In Vivo Silencing/Overexpression of lncRNAs by CRISPR/Cas System

      • Marianna Vitiello, Laura Poliseno, Pier Paolo Pandolfi
      Pages 205-220

    8. Experimental Validation of the Noncoding Potential for lncRNAs

      • Emily A. Dangelmaier, Ashish Lal
      Pages 221-230
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Keywords

About this book

This volume presents techniques needed for the study of long non-coding RNAs (lncRNAs) in cancer from their identification to functional characterization. Chapters guide readers through identification of lncRNA expression signatures in cancer tissue or liquid biopsies by RNAseq, single Cell RNAseq, Phospho RNAseq or Nanopore Sequencing techniques; validation of lncRNA signatures by Real time PCR, digital PCR or in situ hybridization; and functional analysis by siRNA or CRISPR based methods for lncRNA silencing or overexpression. Lipid based nanoparticles for delivery of siRNAs in vivo, lncRNA-protein interactions, viral lncRNAs and circRNAs are also treated in this volume. Written in the format of the highly successful Methods in Molecular Biology series, each chapter includes an introduction to the topic, lists necessary materials and reagents, includes tips on troubleshooting and known pitfalls, and step-by-step, readily reproducible protocols.

 

Authoritative and practical, Long Non-Coding RNAs in Cancer aims to provide a collection of laboratory protocols, bioinformatic pipelines, and review chapters to further research in this vital field. 

Editors and Affiliations

  • Faculty of Medicine and Health Sciences, University of Barcelona, Barcelona, Spain

    Alfons Navarro

Bibliographic Information

  • Book Title: Long Non-Coding RNAs in Cancer

  • Editors: Alfons Navarro

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-0716-1581-2

  • Publisher: Humana New York, NY

  • eBook Packages: Springer Protocols

  • Copyright Information: Springer Science+Business Media, LLC, part of Springer Nature 2021

  • Hardcover ISBN: 978-1-0716-1580-5Published: 24 June 2021

  • Softcover ISBN: 978-1-0716-1583-6Published: 25 June 2022

  • eBook ISBN: 978-1-0716-1581-2Published: 23 June 2021

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 1

  • Number of Pages: XII, 387

  • Number of Illustrations: 55 illustrations in colour

  • Topics: Cancer Research, Biomedicine, general, Human Genetics

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