Inter-laboratory evaluation of instrument platforms and experimental workflows for quantitative accuracy and reproducibility assessment

EuPA Open Proteomics, Volume 8, September 2015, Pages 6–15
Andrew J. Percy, Jessica Tamura-Wells, Juan Pablo Albar, Kerman Aloria, Ardeshir Amirkhani, Gabriel D.T. Araujo, Jesus M. Arizmendi, Francisco J. Blanco, Francesc Canals, Jin-Young Cho, Núria Colomé-Calls, Fernando J. Corrales, Gilberto Domont, Guadalupe Espadas, Patricia Fernandez-Puente, Concha Gil, Paul A. Haynes, Maria Luisa Hernáez, Jin Young Kim, Arthur Kopylov, Miguel Marcilla, Mathew J. McKay, Mehdi Mirzaei, Mark P. Molloy, Leanne B. Ohlund, Young-Ki Paik, Alberto Paradela, Mark Raftery, Eduard Sabidó, Lekha Sleno, Daniel Wilffert, Justina C. Wolters, Jong Shin Yoo, Victor Zgoda, Carol E. Parker, Christoph H. Borchers.

The reproducibility of plasma protein quantitation between laboratories and between instrument types was examined in a large-scale international study involving 16 laboratories and 19 LC–MS/MS platforms, using two kits designed to evaluate instrument performance and one kit designed to evaluate the entire bottom-up workflow. There was little effect of instrument type on the quality of the results, demonstrating the robustness of LC/MRM-MS with isotopically labeled standards. Technician skill was a factor, as errors in sample preparation and sub-optimal LC–MS performance were evident. This highlights the importance of proper training and routine quality control before quantitation is done on patient samples.