Enhanced DMS-MaP enables superior RNA structural analysis
We develop an enhanced MaP protocol based on MarathonRT and bioinformatic optimizations which enables robust DMS probing of all four RNA nucleotides within living cells. We demonstrate this on RNA from E. coli and HEK293 cell lines. Overall design: RNA from HEK293 and E. coli cells were probed in-cell or cell-free with DMS and libraries were generated using Superscript II, MarathonRT, or TGIRT-III MaP protocols.