Epitranscriptomics Methods and Protocols 1st Edition by Narendra Wajapeyee, Romi Gupta ISBN 9781493988075 1493988077

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ISBN 10:  1493988077

ISBN 13: 9781493988075

Author: Narendra Wajapeyee, Romi Gupta

 This volume provides readers with the latest technologies to study changes in the epitranscriptome. The protocols described in this book explore both targeted and unbiased high-throughput analysis associated with post-transcriptional RNA modification. The chapters in this book also cover specific topics such as transcriptome-wide detection of 5-methylcytosine; HAMR; iRNA-2OM; genome-wide annotation of circRNAs; immune-northern blotting; and detection and quantification of pseudouridine in RNA. 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.
Authoritative and comprehensive, Epitranscriptomics: Methods and Protocols is an important resource for both expert and novice scientists who are interested in learning more aboutthis field.

Table of contents: 

1. Bisulfite Sequencing of RNA for Transcriptome-Wide Detection of 5-Methylcytosine

2. Single-Molecule Analysis of RNA Dynamics in Living Cells Using Molecular Beacons

3. Visualization of Xist Long Noncoding RNA with a Fluorescent CRISPR/Cas9 System

4. HAMR: High-Throughput Annotation of Modified Ribonucleotides

5. High-Resolution Mapping of N6-Methyladenosine Using m6A Crosslinking Immunoprecipitation Sequencing

6. Direct Chemical Biotinylation of RNA 5′-Ends Using a Diazo Reagent

7. Identification of Methylated Transcripts Using the TRIBE Approach

8. Decoding the Atlas of RNA Modifications from Epitranscriptome Sequencing Data

9. Detection of MicroRNA-Mediated Target mRNA Cleavage and 3′-Uridylation in Human Cells

10. Genome-Wide Annotation of circRNAs and Their Alternative Back-Splicing/Splicing with CIRCexplorer Pipeline

11. Synthesis and Evaluation of Novel Neamine–Nucleoside Conjugates as Potential Antibiotic Targets

12. Electron Microscope Detection of 5-Methylcytosine on DNA and RNA

13. Immuno-Northern Blotting: Detection of Modified RNA Using Gel Separation and Antibodies

14. LncVar: Deciphering Genetic Variations Associated with Long Noncoding Genes

15. Guided Reconstruction of Full-Length Isoforms from Short Reads by CIDANE

16. Profiling of N6-Methyladenosine in Zika Virus RNA and Host Cellular mRNA

17. Detection and Quantification of Pseudouridine in RNA

18. 5-Methylcytosine Analysis by RNA-BisSeq

19. RNA Modification Regulatory Genes in DNA Damage

20. Dot Blot Analysis for Measuring Global N6-Methyladenosine Modification of RNA

21. Mapping and Quantification of tRNA 2′-O-Methylation by RiboMethSeq

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Tags: Narendra Wajapeyee, Romi Gupta, Epitranscriptomics, Methods, Protocols