How can modified RNA sequences accurately obtain results through meltR.A

[oldliyoungli]

How can modified RNA sequences accurately obtain results through meltR.A, and how should the part NucAcid = c('RNA', 'CGAAAGGU', 'ACCUUUCG') be modified?

[JPSieg]

Hi! Great question! MeltR does not have the data needed to calculate molar extinction coefficients for modified nucleic acids. Your best bet for modified nucleic acid sequences is to supply a custom molar extinction coefficients that you determined separately (for example, from IDT) like this: NucAcid = c("Custom", 105860, 82300). Please ensure that the units are L/(molecm) = 1/(Mcm). This is is described on page 35 of the manual: https://github.com/JPSieg/MeltR/blob/master/Manual.pdf.