There are multiple pseudouridine detection methods beginning with the addition of N-cyclohexyl-N′-b-(4-methylmorpholinium) ethylcarbodiimide metho-p-toluene-sulfonate (CMCT; also known as CMC), since its reaction with pseudouridine produces CMC-Ψ.  CMC-Ψ causes reverse transcriptase to stall one nucleotide in the 3’ direction. These methods have single-nucleotide resolution.
In an optimisation step, azido-CMC can confer the ability to add biotinylation; subsequent biotin pulldown will enrich Ψ-containing transcripts, allowing identification of even low-abundance transcripts.