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RNA Modification Enzymes

1st Edition - September 11, 2021

Editor: Jane E. Jackman

Hardback ISBN:

9 7 8 - 0 - 1 2 - 8 2 3 5 8 5 - 0

eBook ISBN:

9 7 8 - 0 - 1 2 - 8 2 3 5 8 6 - 7

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… Read more

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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.

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