Demonstrating the feasibility of large-scale development of standardized assays to quantify human proteins
- Demonstrating the feasibility of large-scale development of standardized assays to quantify human proteins
- Jacob J Kennedy; Susan E Abbatiello; Kyunggon Kim; Ping Yan; Jeffrey R Whiteaker; Chenwei Lin; 김준석; Yuzheng Zhang; Xianlong Wang; Richard G Ivey; Lei Zhao; Hophil Min; 이영주; 유명희; 양은경; 이철주; Pei Wang; Henry Rodriguez; Youngsoo Kim; Steven A Carr; Amanda G Paulovich
- Proteomic analysis; Proteome informatics; Cancer; Proteomics
- Issue Date
- Nature methods
- VOL 11, NO 2, 149-155
- 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 (R2 > 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.
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