Evaluation of different ion-pairing reagents for LC-UV and LC-MS analysis of oligonucleotides

The effect of various ion pairing reagents (amines and acidic counterions) on the LC-UV and LC-MS analysis of oligonucleotides (ONs) has been studied. The type of amine and concentration of the counterion play a significant role in the retention and resolution of the ONs and strongly affect the MS data.

In this application note, Agilent Technologies demonstrates that there are numerous variables available for optimization of the analytical conditions for ONs. The analyses were carried out on an Agilent 1290 Infinity II LC System with UV detection by DAD and an Agilent 6530 LC/Q-TOF.