Skip to main content
SpringerLink
Log in

Functional Analysis of Long Non-Coding RNAs

Methods and Protocols

  • Book
  • © 2021

Overview

Editors:
  1. Haiming Cao

    1. Cardiovascular Branch, National Heart, Lung and Blood Institute, National Institutes of Health, Bethesda, USA

    View editor publications

    You can also search for this editor in PubMed   Google Scholar

  • Includes cutting-edge techniques
  • Provides step-by-step detail essential for reproducible results
  • Contains key implementation advice from the experts

Part of the book series: Methods in Molecular Biology (MIMB, volume 2254)

This is a preview of subscription content, log in via an institution to check access.

Access this book

Log in via an institution
eBook USD 89.00
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book USD 119.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info
Hardcover Book USD 169.99
Price excludes VAT (USA)
  • Durable hardcover edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Other ways to access

Licence this eBook for your library

Institutional subscriptions

Table of contents (22 protocols)

  1. Front Matter

    Pages i-xiii
    Download chapter PDF

  2. Bioinformatics Approaches for Functional Prediction of Long Noncoding RNAs

    • Fayaz Seifuddin, Mehdi Pirooznia
    Pages 1-13

  3. Visualization of lncRNA and mRNA Structure Models Within the Integrative Genomics Viewer

    • Steven Busan, Kevin M. Weeks
    Pages 15-25

  4. RNA Coding Potential Prediction Using Alignment-Free Logistic Regression Model

    • Ying Li, Liguo Wang
    Pages 27-39

  5. Classification of Long Noncoding RNAs by k-mer Content

    • Jessime M. Kirk, Daniel Sprague, J. Mauro Calabrese
    Pages 41-60

  6. Genome-Wide Computational Analysis and Validation of Potential Long Noncoding RNA-Mediated DNA–DNA–RNA Triplexes in the Human Genome

    • Saakshi Jalali, Amrita Singh, Vinod Scaria, Souvik Maiti
    Pages 61-71

  7. Using INFERNO to Infer the Molecular Mechanisms Underlying Noncoding Genetic Associations

    • Alexandre Amlie-Wolf, Pavel P. Kuksa, Chien-Yueh Lee, Elisabeth Mlynarski, Yuk Yee Leung, Li-San Wang
    Pages 73-91

  8. A Bioinformatic Pipeline to Integrate GWAS and eQTL Datasets to Identify Disease Relevant Human Long Noncoding RNAs

    • Yi Chen, Ping Li, Haiming Cao
    Pages 93-110

  9. AnnoLnc: A One-Stop Portal to Systematically Annotate Novel Human Long Noncoding RNAs

    • De-Chang Yang, Lan Ke, Yang Ding, Ge Gao
    Pages 111-131

  10. Annotation of Full-Length Long Noncoding RNAs with Capture Long-Read Sequencing (CLS)

    • Sílvia Carbonell Sala, Barbara UszczyÅ„ska-Ratajczak, Julien Lagarde, Rory Johnson, Roderic Guigó
    Pages 133-159

  11. Single-Cell Analysis of Long Noncoding RNAs (lncRNAs) in Mouse Brain Cells

    • Boyang Zhang, Wentao Xu, James Eberwine
    Pages 161-177

  12. Detection and Characterization of Ribosome-Associated Long Noncoding RNAs

    • Chao Zeng, Michiaki Hamada
    Pages 179-194

  13. Analysis of Annotated and Unannotated Long Noncoding RNAs from Exosome Subtypes Using Next-Generation RNA Sequencing

    • Wittaya Suwakulsiri, Maoshan Chen, David W. Greening, Rong Xu, Richard J. Simpson
    Pages 195-218

  14. DMS-MaPseq for Genome-Wide or Targeted RNA Structure Probing In Vitro and In Vivo

    • Phillip Tomezsko, Harish Swaminathan, Silvi Rouskin
    Pages 219-238

  15. Labeling and Purification of Temporally Expressed RNAs During the S-Phase of the Cell Cycle in Living Cells

    • Matthieu Meryet-Figuiere, Mohamad Moustafa Ali, Santhilal Subhash, Chandrasekhar Kanduri
    Pages 239-249

  16. A Quick Immuno-FISH Protocol for Detecting RNAs, Proteins, and Chromatin Modifications

    • Akiyo Ogawa, Yuya Ogawa
    Pages 251-257

  17. M(R)apping RNA–Protein Interactions

    • Jasmine Barra, Roberto Vendramin, Eleonora Leucci
    Pages 259-272

  18. In Vivo Administration of Therapeutic Antisense Oligonucleotides

    • Luisa Statello, Mohamad Moustafa Ali, Chandrasekhar Kanduri
    Pages 273-282

  19. CRISPR-Mediated Mutagenesis of Long Noncoding RNAs

    • Tomohiro Yamazaki, Tetsuro Hirose
    Pages 283-303

  20. In Vivo CRISPR/Cas9-Based Targeted Disruption and Knockin of a Long Noncoding RNA

    • Xi Cheng, Samuel T. Peters, Shondra M. Pruett-Miller, Thomas L. Saunders, Bina Joe
    Pages 305-321
Back to top

Keywords

About this book

This detailed volume presents a comprehensive bioinformatic and experimental toolbox for prioritizing, annotating, and functionally analyzing long non-coding RNAs (lncRNAs). Playing a vital role in diverse biological progresses and human disease, lncRNAs have proven to be a challenging subject of study due to our limited understanding of their sequence-function relationships, lack of complete genetic annotation, and the unavailability of systems required to define their functional importance and molecular mechanisms, all of which this book seeks to address. 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, Functional Analysis of Long Non-Coding RNAs: Methods and Protocols provides atimely and convenient resource to facilitate the identification and characterization of disease-associated human lncRNAs, which aims to shed light on their role in biology and pathophysiology and ultimately lead toward novel therapeutic approaches targeting lncRNAs for the amelioration of human diseases.

Editors and Affiliations

  • Cardiovascular Branch, National Heart, Lung and Blood Institute, National Institutes of Health, Bethesda, USA

    Haiming Cao

Bibliographic Information

  • Book Title: Functional Analysis of Long Non-Coding RNAs

  • Book Subtitle: Methods and Protocols

  • Editors: Haiming Cao

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-0716-1158-6

  • Publisher: Humana New York, NY

  • eBook Packages: Springer Protocols

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

  • Hardcover ISBN: 978-1-0716-1157-9Published: 17 December 2020

  • Softcover ISBN: 978-1-0716-1160-9Published: 18 December 2021

  • eBook ISBN: 978-1-0716-1158-6Published: 16 December 2020

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 1

  • Number of Pages: XIII, 351

  • Number of Illustrations: 10 b/w illustrations, 54 illustrations in colour

  • Topics: Genetics and Genomics

Publish with us

Policies and ethics

Back to top

Search

Navigation