@article{9a2d92753b48444ca01fec0dd6a69e25,
title = "Standardization and harmonization of distributed multi-center proteotype analysis supporting precision medicine studies",
abstract = "Cancer has no borders: Generation and analysis of molecular data across multiple centers worldwide is necessary to gain statistically significant clinical insights for the benefit of patients. Here we conceived and standardized a proteotype data generation and analysis workflow enabling distributed data generation and evaluated the quantitative data generated across laboratories of the international Cancer Moonshot consortium. Using harmonized mass spectrometry (MS) instrument platforms and standardized data acquisition procedures, we demonstrate robust, sensitive, and reproducible data generation across eleven international sites on seven consecutive days in a 24/7 operation mode. The data presented from the high-resolution MS1-based quantitative data-independent acquisition (HRMS1-DIA) workflow shows that coordinated proteotype data acquisition is feasible from clinical specimens using such standardized strategies. This work paves the way for the distributed multi-omic digitization of large clinical specimen cohorts across multiple sites as a prerequisite for turning molecular precision medicine into reality.",
author = "Yue Xuan and Bateman, {Nicholas W.} and Sebastien Gallien and Sandra Goetze and Yue Zhou and Pedro Navarro and Mo Hu and Niyati Parikh and Hood, {Brian L.} and Conrads, {Kelly A.} and Christina Loosse and Kitata, {Reta Birhanu} and Piersma, {Sander R.} and Davide Chiasserini and Hongwen Zhu and Guixue Hou and Muhammad Tahir and Andrew Macklin and Amanda Khoo and Xiuxuan Sun and Ben Crossett and Albert Sickmann and Chen, {Yu Ju} and Jimenez, {Connie R.} and Hu Zhou and Siqi Liu and Larsen, {Martin R.} and Thomas Kislinger and Zhinan Chen and Parker, {Benjamin L.} and Cordwell, {Stuart J.} and Bernd Wollscheid and Conrads, {Thomas P.}",
note = "Funding Information: Supported in part by awards from the Ministerium f{\"u}r Kultur und Wissenschaft des Landes Nordrhein-Westfalen, the Regierende B{\"u}rgermeister von Berlin—inkl. Wis-senschaft und Forschung, and the Bundesministerium f{\"u}r Bildung und Forschung to A. S.; the National Cancer Institute Early Detection Research Network (1U01CA214194-01), a CIHR Project Grant (PJT 156357), and a Collaborative Personalized Cancer Medicine Team Grant from the Princess Margaret Cancer Centre, T.K.); the Congressionally Directed Medical Research Program{\textquoteright}s Ovarian Cancer Research Program (W81XWH-19-1-0183 and W81XWH-16-2-0038) and the Uniformed Services University of the Health Sciences (USUHS) through cooperative agreements (HU0001-16-2-0006, HU0001-16-2-0014, and HU0001-18-1-0012) with The Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc. (T.P.C.); Academia Sinica and Ministry of Science and Technology in Taiwan (R.B.K. and Y.J.C.); Proteomics and mass spectrometry research at SDU is supported by generous grants to the VILLUM Center for Bioanalytical Sciences (VILLUM Foundation grant no. 7292) and PRO-MS: Danish National Mass Spectrometry Platform for Functional Proteomics (grant no. 5072-00007B, M.R.L.); National Key R&D Program of China (2017YFC0908403, S.L.); Cancer Center Amsterdam and Netherlands Organization for Scientific Research (NWO-Middelgroot 91116017, C.R.J.). An Australian NHMRC Early Career fellowship (B.L.P). This work was also supported by the Personalized Health and Related Technologies (PHRT) strategic focus area of ETH (to B.W.). Funding Information: Y.X., S.Ga., Y.Z., P.N., and M.H. are employees of Thermo Fisher Scientific, which operates in the field covered by the article. T.P.C. is a SAB member for ThermoFisher Scientific Inc. and receives research funding from AbbVie Inc. The remaining authors declare no competing financial interests. Publisher Copyright: {\textcopyright} 2020, The Author(s).",
year = "2020",
month = dec,
day = "1",
doi = "10.1038/s41467-020-18904-9",
language = "English",
volume = "11",
journal = "Nature Communications",
issn = "2041-1723",
number = "1",
}