Capillary electrophoresis (CE) is a fast and highly sensitive analytical technique commonly used for characterization of protein biologics . CE analysis requires minimum sample making it an ideal platform for the characterization of low yield products like AAVs. In the past, CE has often struggled with compatibility to other highly informative analytical platforms such as mass spectrometry (MS), however great strides have been made in creating coupled CE-MS platforms that can maximize the potential of their respective analytical capabilities . One such platform is microchip CE-MS.