Apobec Enzymes

Section 1: Assays to characterize DNA or RNA editing activity 1. Fluorescent shift assay for APOBECs RNA editing Xiaojiang S. Chen 2. Low Error Sequencing Methods to Tetect APOBEC-mediated RNA editing: Circular RNAseq and Safe-Sequencing System Xiaojiang S. Chen 3. ""Safe-Barcode"" RNAseq assay for APOBECs RNA editing Xiaojiang S. Chen 4. DT40 cell system to characterize somatic hypermutation Silvestro Conticello 5. CH12 cell system to assay AID activity on class switch recombination Silvestro Conticello 6. Purification of Enzymatically Active APOBEC Proteins from an Insect Cell Expression System Linda Chelico 7. In vitro deamination assay to measure the activity and processivity of AID/APOBEC deaminases Linda Chelico 8. Defining genome-wide mutagenic impact of APOBEC3 enzymes Abby M. Green and Dávid Szüts 9. APOBEC-induced mutational assay in yeast Steven Andrew Roberts Section 2: Assays for APOBEC drug discovery 10. Biochemical assay for the identification of APOBECs inhibitors Mani Larijani Section 3: monitoring RNA or DNA editing 11. An In Vitro Cytidine Deaminase Assay to Monitor APOBEC activity on DNA Rémi Buisson 12. Profiling rare C-to-U editing events via direct RNA sequencing Ernesto Picardi and Adriano Fonzino 13. Global quantification of off-target activity by base editors Erez Levanon and Michelle Eidelman Section 4: Deaminases as tools for programmable RNA or DNA base editing 14. Programmable C to U RNA editing based on the APOBEC1 deaminase Toshifumi Tsukahara Section 5: Deaminases as tools for molecules tracking 15. Harnessing APOBEC editing for detecting RBP-RNA interactions Gene W. Yeo and Tao Yu 16. Programmable C to U editing to track endogenous proteins Tao Liu