Figure 1.

A given RNA modification may be detected by direct sequencing, such as the Oxford Nanopore Technology, or by SBS sequencing methods that involve an obligate RT into cDNA step. When the RNA modification does not change base pairing during RT (silent), the modification is enriched through specific antibodies, or ‘unsilenced’ through specific treatments. In the latter case, and when the RNA modification naturally changes the base pairing (RT signature) or creates a roadblock, it can inferred though mismatch to the reference or read pile-up or drop-off.