Kennedy, Jacob J. Abbatiello, Susan E. Kim, Kyunggon Yan, Ping Whiteaker, Jeffrey R. Lin, Chenwei Kim, Jun Seok Zhang, Yuzheng Wang, Xianlong Ivey, Richard G. Zhao, Lei Min, Hophil Lee, Youngju Yu, Myeong-Hee Yang, Eun Gyeong Lee, Cheolju Wang, Pei Rodriguez, Henry Kim, Youngsoo Carr, Steven A. Paulovich, Amanda G. 2024-01-20T10:32:37Z 2024-01-20T10:32:37Z 2021-09-05 2014-02 1548-7091 https://pubs.kist.re.kr/handle/201004/127168 Multiple reaction monitoring (MRM) mass spectrometry has been successfully applied to monitor targeted proteins in biological specimens, raising the possibility that assays could be configured to measure all human proteins. We report the results of a pilot study designed to test the feasibility of a large-scale, international effort for MRM assay generation. We have configured, validated across three laboratories and made publicly available as a resource to the community 645 novel MRM assays representing 319 proteins expressed in human breast cancer. Assays were multiplexed in groups of >150 peptides and deployed to quantify endogenous analytes in a panel of breast cancer-related cell lines. The median assay precision was 5.4%, with high interlaboratory correlation (R-2 > 0.96). Peptide measurements in breast cancer cell lines were able to discriminate among molecular subtypes and identify genome-driven changes in the cancer proteome. These results establish the feasibility of a large-scale effort to develop an MRM assay resource. English NATURE PUBLISHING GROUP MONITORING MASS-SPECTROMETRY GENE-EXPRESSION SIGNATURE CANCER CELL-LINES BREAST-CANCER BIOMARKER VERIFICATION PROTEOMICS QUANTITATION DATABASE PEPTIDE REPRODUCIBILITY Demonstrating the feasibility of large-scale development of standardized assays to quantify human proteins Article 10.1038/NMETH.2763 1 NATURE METHODS, v.11, no.2, pp.149 - + NATURE METHODS 11 2 149 + scie scopus 000331141600015 2-s2.0-84895072645 Biochemical Research Methods Biochemistry & Molecular Biology Article MONITORING MASS-SPECTROMETRY GENE-EXPRESSION SIGNATURE CANCER CELL-LINES BREAST-CANCER BIOMARKER VERIFICATION PROTEOMICS QUANTITATION DATABASE PEPTIDE REPRODUCIBILITY Proteomic analysis Proteome informatics Cancer Proteomics