A Sensitive and Controlled SWATH Acquisition Method for Proteomic Analysis of Cell Therapies
Camille Lombard-Banek, Kerstin Pohl, Edward Kwee, John T. Elliott, John E. Schiel
Mass Spectrometry (MS)-based proteomic measurements are uniquely poised to impact the development of cell and gene therapies. With the adoption of rigorous instrumental performance controls (PQs), large-scale proteomics can move from a research to a manufacturing control tool. Especially suited, data-independent acquisition (DIA) approaches have distinctive qualities to extend multi-attribute method (MAM) principles to characterize the proteome of cell therapies. Here we describe the development of a DIA method by SWATH Acquisition for the sensitive identification and quantification of proteins on a Q-TOF instrument. Using the improved acquisition parameters, we defined some control metrics to improve the reproducibility of SWATH Acquisition-based proteomic measurements. Finally, we applied the method to analyze the proteome of Jurkat cells that here serves as a model for human T-cells.
, Pohl, K.
, Kwee, E.
, Elliott, J.
and Schiel, J.
A Sensitive and Controlled SWATH Acquisition Method for Proteomic Analysis of Cell Therapies, ACS Journal of Proteome Research, [online], https://doi.org/10.1021/acs.jproteome.1c00887, https://tsapps.nist.gov/publication/get_pdf.cfm?pub_id=933537
(Accessed February 6, 2023)