The use of alkylamine ion pair and perfluorinated alcohols in the analysis of oligonucleotides by LC-MS techniques has been the mainstay in characterization and quantitation methods for synthetic oligonucleotides for decades. Often, analytical chemists default to relatively high concentrations of both. But how much ion pair is needed for optimal chromatographic performance? How much does perfluorinated alcohol concentration contribute to electrospray ionization efficiency? In this presentation, we explore modulation of both mobile phase additives, including different options for alkylamine ion pair outside of the commonly used triethylamine.

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