RNA Modification Enzymes

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

• PrefaceJane E. Jackman1. Locating chemical modifications in RNA sequences through ribonucleases and LC-MS based analysisBalasubrahmanyam Addepalli2. Development of RNA modification mapping pipelines for high-throughput sequencing approachesTodd Lowe3. AlkAniline-Seq for high-resolution mapping RNA m7G and m3C modificationsYuri Motorin4. Facile detection of RNA phospho-methylation in cellsBlerta Xhemalce5. Detection and analysis of glycosylated queuosine modificationsTao Pan6. A comprehensive pipeline for analysis of RNA 3’-end modificationInna Afasizheva7. Analysis of the epitranscriptome with ion-pairing reagent free oligonucleotide mass spectrometryStefanie Kellner8. Direct sequencing (ONT) to detect m6A modification9. RNA immunoprecipitation to identify in vivo targets of RNA editing and modifying enzymesHeather A. Hundley10. AdoMet-based labeling of RNAAndrea Rentmeister11. Coupling crosslinking and RNA modification sequencing for identifying RNA modification interacting proteinsJuan Alfonzo12. Characterization of codon-specific translation defects using ribosome profilingSebastian A. Leidel13. Partially modified tRNAs for the study of tRNA maturation and functionUte Kothe14. In vitro assays for complex multi-step RNA modification reactionsDirk Iwata-Reuyl15. Transient kinetic analysis for studying RNA modification enzyme mechanismsJane E. Jackman16. High-throughput detection and analysis of pseudouridine synthase activitiesWendy Gilbert17. Activity assays for wobble inosine modification in tRNADragony Fu18. Targeting RNA with site-directed RNA EditingJosh Rosenthal19. RNA pull-down assays for distinguishing tRNA modification substrate specificitiesEric Phizicky20. Assessing the consequences of mRNA modifications on protein synthesis using in vitro translation assaysKristin Koutmou21. Mass spectrometry based methods for studying mRNA 5’-cap modificationsTsutomu Suzuki22. CLIP-Seq to identify targets and interactions of RNA modification enzymesFange Liu23. CRISPR-mediated genome editing targeting RNA modification enzymesDouglas Bernstein