RNA Modification Enzymes: Volume 658

RNA Modification Enzymes, Volume 659 in the Methods in Enzymology series, highlights new advances in the field, with this new volume presenting interesting chapters on a variety of related topics, including Locating chemical modifications in RNA sequences through ribonucleases and LC-MS based analysis, Development of RNA modification mapping pipelines for high-throughput sequencing approaches, AlkAniline-Seq for high-resolution mapping RNA m7G and m3C modifications, Facile detection of RNA phospho-methylation in cells, Detection and analysis of glycosylated queuosine modifications, A comprehensive pipeline for analysis of RNA 3'-end modification, Analysis of the epitranscriptome with ion-pairing reagent free oligonucleotide mass spectrometry, and more.

Autorentext
Jane E. Jackman, Professor, Department of Chemistry and Biochemistry, Director and Graduate Studies Committee Chair, The Ohio State Biochemistry Program, Dept of Chemistry and Biochemistry, Columbus, USA

Inhalt

Preface
Jane E. Jackman
1. Locating chemical modifications in RNA sequences through ribonucleases and LC-MS based analysis
Balasubrahmanyam Addepalli
2. Development of RNA modification mapping pipelines for high-throughput sequencing approaches
Todd Lowe
3. AlkAniline-Seq for high-resolution mapping RNA m7G and m3C modifications
Yuri Motorin
4. Facile detection of RNA phospho-methylation in cells
Blerta Xhemalce
5. Detection and analysis of glycosylated queuosine modifications
Tao Pan
6. A comprehensive pipeline for analysis of RNA 3'-end modification
Inna Afasizheva
7. Analysis of the epitranscriptome with ion-pairing reagent free oligonucleotide mass spectrometry
Stefanie Kellner
8. Direct sequencing (ONT) to detect m6A modification

9. RNA immunoprecipitation to identify in vivo targets of RNA editing and modifying enzymes
   Heather A. Hundley
   10. AdoMet-based labeling of RNA
   Andrea Rentmeister
   11. Coupling crosslinking and RNA modification sequencing for identifying RNA modification interacting proteins
   Juan Alfonzo
   12. Characterization of codon-specific translation defects using ribosome profiling
   Sebastian A. Leidel
   13. Partially modified tRNAs for the study of tRNA maturation and function
   Ute Kothe
   14. In vitro assays for complex multi-step RNA modification reactions
   Dirk Iwata-Reuyl
   15. Transient kinetic analysis for studying RNA modification enzyme mechanisms
   Jane E. Jackman
   16. High-throughput detection and analysis of pseudouridine synthase activities
   Wendy Gilbert
   17. Activity assays for wobble inosine modification in tRNA
   Dragony Fu
   18. Targeting RNA with site-directed RNA Editing
   Josh Rosenthal
   19. RNA pull-down assays for distinguishing tRNA modification substrate specificities
   Eric Phizicky
   20. Assessing the consequences of mRNA modifications on protein synthesis using in vitro translation assays
   Kristin Koutmou
   21. Mass spectrometry based methods for studying mRNA 5'-cap modifications
   Tsutomu Suzuki
   22. CLIP-Seq to identify targets and interactions of RNA modification enzymes
   Fange Liu
   23. CRISPR-mediated genome editing targeting RNA modification enzymes
   Douglas Bernstein