Functional Analysis of Long Non-Coding RNAs
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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…mehr

Produktbeschreibung
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 a timely 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.
  • Produktdetails
  • Methods in Molecular Biology 2254
  • Verlag: Humana / Springer US / Springer, Berlin
  • Artikelnr. des Verlages: 978-1-0716-1157-9
  • 1st ed. 2021
  • Seitenzahl: 368
  • Erscheinungstermin: 17. Dezember 2020
  • Englisch
  • Abmessung: 260mm x 183mm x 25mm
  • ISBN-13: 9781071611579
  • ISBN-10: 1071611577
  • Artikelnr.: 59894213
Inhaltsangabe
1. Bioinformatics Approaches for Functional Prediction of Long Non-Coding RNAs

Fayaz Seifuddin and Mehdi Pirooznia

2. Visualization of lncRNA and mRNA Structure Models within the Integrative Genomics Viewer

Steven Busan and Kevin M. Weeks

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

Ying Li and Liguo Wang

4. Classification of Long Non-Coding RNAs by K-mer Content

Jessime M. Kirk, Daniel Sprague, and J. Mauro Calabrese

5. Genome-Wide Computational Analysis and Validation of Potential Long Non-Coding RNA-Mediated DNA-DNA:RNA Triplexes in the Human Genome

Saakshi Jalali, Amrita Singh, Vinod Scaria, and Souvik Maiti

6. Using INFERNO to Infer the Molecular Mechanisms Underlying Non-Coding Genetic Associations

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

7. A Bioinformatic Pipeline to Integrate GWAS and eQTL Datasets to Identify Disease Relevant Human Long Non-Coding RNAs

Yi Chen, Ping Li, and Haiming Cao

8. AnnoLnc: A One-Stop Portal to Systematically Annotate Novel Human Long Non-Coding RNAs

De-Chang Yang, Lan Ke, Yang Ding, and Ge Gao

9. Annotation of Full-Length Long Non-Coding RNAs with Capture Long-Read Sequencing (CLS)

Silvia Carbonell Sala, Barbara Uszczynska-Ratajczak, Julien Lagarde, Rory Johnson, and Roderic Guigo

10. Single-Cell Analysis of Long Non-Coding RNAs (lncRNAs) in Mouse Brain Cells

Boyang Zhang, Wentao Xu, and James Eberwine

11. Detection and Characterization of Ribosome-Associated Long Non-Coding RNAs

Chao Zeng and Michiaki Hamada

12. Analysis of Annotated and Unannotated Long Non-Coding RNAs from Exosome Subtypes Using Next-Generation RNA Sequencing

Wittaya Suwakulsiri, Maoshan Chen, David W. Greening, Rong Xu, and Richard J. Simpson

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

Phillip Tomezsko, Harish Swaminathan, and Silvi Rouskin

14. 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, and Chandrasekhar Kanduri

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

Akiyo Ogawa and Yuya Ogawa

16. M(R)apping RNA-Protein Interactions

Jasmine Barra, Roberto Vendramin, and Eleonora Leucci

17. In Vivo Administration of Therapeutic Antisense Oligonucleotides

Luisa Statello, Mohamad Moustafa Ali, and Chandrasekhar Kanduri

18. CRISPR-Mediated Mutagenesis of Long Non-Coding RNAs

Tomohiro Yamazaki and Tetsuro Hirose

19. In Vivo CRISPR/Cas9-Based Targeted Disruption and Knock-In of a Long Non-Coding RNA

Xi Cheng, Samuel T. Peters, Shondra M. Pruett-Miller, Thomas Saunders, and Bina Joe

20. Genome-Scale Perturbation of Long Non-Coding RNA Expression Using CRISPR Interference

S. John Liu, Max A. Horlbeck, Jonathan S. Weissman, and Daniel A. Lim

21. In Vivo Functional Analysis of Non-Conserved Human lncRNAs Using a Humanized Mouse Model

Yonghe Ma, Cheng-fei Jiang, Ping Li, and Haiming Cao