m6A-RNA mapping, SND1-RNA binding profile mapping and SND1-depletion in KSHV-infected B-lymphocytes

We have mapped m6A sites and endogenous SND1 binding sites in the viral and cellular transcriptome using TREx BCBL1-Rta cells. In addition, we have depleted SND1 in TREx BCBL1-Rta cells and BCBL1 cells and analyzed their RNA expression profile both during latency and lytic replication. Overall design: Identification of m6A sites in TREx BCBL1-Rta cells at 0h, 8 and 20 h post-lytic reactivation. SND1 transcriptome-wide binding profile in TREx BCBL1-Rta cells at 0h, 8 and 20 h post-lytic reactivation. RNA expression profile in scramble and SND1-depleted cells in both latent and reactivated TREx BCBL1-Rta cells for 24 h. Same RNA expression profile in shRNA scramble and shRNA SND1-depleted BCBL1 cells.