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

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 KopylovMiguel 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

Research output: Contribution to journalArticlepeer-review

30 Citations (Scopus)


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.

Original languageEnglish
Pages (from-to)6-15
Number of pages10
JournalEuPA Open Proteomics
Publication statusPublished - 2015 Sep 1

Bibliographical note

Funding Information:
The UVic-Genome BC Proteomics Centre would like to thank Genome Canada and Genome British Columbia for STIC funding and support, as well as Western Economic Diversification of Canada for instrumentation support. All laboratories from Spain are members of ProteoRed (Plataforma de Recursos Biomoleculares y Bioinformáticos) and are supported by grant PT13/0001 funded by Instituto de Salud Carlos III (ISCIII) and the European Regional Development Fund (FEDER) . FC wishes to acknowledge support from Grant PRB2 (IPT13/0001 - ISCIII-SGEFI/FEDER). GD wishes to acknowledge support from grants FAPERJ E26-110.138/2013, FAPERJ E-26/111.697/2013, and FAPERJ E-26/0010.1582/2014. AK and VZ state that the Russian portion of the work was done in the framework of the State Academies Fundamental Research Program (2013-2020). Reynaldo Interior (Hospital for Sick Children; Toronto, ON, Canada), Jay Gambee (AAA Service Laboratory; Damascus, OR, USA), and David Chen (University of British Columbia; Vancouver, BC, Canada) are recognized for characterizing the 43 SIS peptides. PAH wishes to thank Ardeshir Amirkhani of the Australian Proteome Analysis Facility, Macquarie University, Sydney, Australia for assistance with sample preparation and data analysis.

Publisher Copyright:
© 2015 The Authors.

All Science Journal Classification (ASJC) codes

  • Biochemistry


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