Book Volume 1562 2017

RNA Methylation

Methods and Protocols

Editors:

ISBN: 978-1-4939-6805-3 (Print) 978-1-4939-6807-7 (Online)

Table of contents (20 protocols)

  1. Front Matter

    Pages i-xi

  2. Modifications in Abundant RNA Species

    1. Front Matter

      Pages 1-1

    2. No Access

      Protocol

      Pages 3-18

      LC-MS Analysis of Methylated RNA

    3. No Access

      Protocol

      Pages 19-32

      Comparative Analysis of Ribonucleic Acid Digests (CARD) by Mass Spectrometry

    4. No Access

      Protocol

      Pages 33-42

      Liquid Chromatography-Mass Spectrometry for Analysis of RNA Adenosine Methylation

  3. Analysis of N6-Methyladenosine

    1. Front Matter

      Pages 43-43

    2. No Access

      Protocol

      Pages 45-53

      Genome-Wide Location Analyses of N6-Methyladenosine Modifications (m6A-Seq)

    3. No Access

      Protocol

      Pages 55-78

      Mapping m6A at Individual-Nucleotide Resolution Using Crosslinking and Immunoprecipitation (miCLIP)

    4. No Access

      Protocol

      Pages 79-87

      Detection and Quantification of N 6-Methyladenosine in Messenger RNA by TLC

  4. Analysis of 5-Methylcytosine

    1. Front Matter

      Pages 89-89

    2. No Access

      Protocol

      Pages 91-106

      Illustrating the Epitranscriptome at Nucleotide Resolution Using Methylation-iCLIP (miCLIP)

    3. No Access

      Protocol

      Pages 107-121

      Detection of 5-Methylcytosine in Specific Poly(A) RNAs by Bisulfite Sequencing

    4. No Access

      Protocol

      Pages 123-142

      Transcriptome-Wide Detection of 5-Methylcytosine by Bisulfite Sequencing

    5. No Access

      Protocol

      Pages 143-154

      Analysis of High-Throughput RNA Bisulfite Sequencing Data

    6. No Access

      Protocol

      Pages 155-167

      Statistical Methods for Transcriptome-Wide Analysis of RNA Methylation by Bisulfite Sequencing

  5. Further RNA Modifications

    1. Front Matter

      Pages 169-169

    2. No Access

      Protocol

      Pages 171-187

      High-Throughput Mapping of 2-O-Me Residues in RNA Using Next-Generation Sequencing (Illumina RiboMethSeq Protocol)

    3. No Access

      Protocol

      Pages 189-209

      RiboMeth-seq: Profiling of 2′-O-Me in RNA

    4. No Access

      Protocol

      Pages 211-229

      In Silico Identification of RNA Modifications from High-Throughput Sequencing Data Using HAMR

    5. No Access

      Protocol

      Pages 231-243

      High-Throughput Small RNA Sequencing Enhanced by AlkB-Facilitated RNA de-Methylation (ARM-Seq)

    6. No Access

      Protocol

      Pages 245-255

      Transcriptome-Wide Mapping of N 1-Methyladenosine Methylome

  6. Functional Assays for Modified and Unmodified RNA

    1. Front Matter

      Pages 257-257

    2. No Access

      Protocol

      Pages 259-268

      In Vitro Assays for RNA Methyltransferase Activity

    3. No Access

      Protocol

      Pages 269-281

      Crosslinking Methods to Identify RNA Methyltransferase Targets In Vivo

    4. No Access

      Protocol

      Pages 283-294

      Methylated mRNA Nucleotides as Regulators for Ribosomal Translation

    5. No Access

      Protocol

      Pages 295-302

      Automated Chemical Solid-Phase Synthesis and Deprotection of 5-Hydroxymethylcytosine-Containing RNA

  7. Back Matter

    Pages 303-304