Human SRMAtlas: A Resource of Targeted Assays to Quantify the Complete Human Proteome

• Published in: Cell 2016-07, Vol.166 (3), p.766-778
• Main Authors: Kusebauch, Ulrike, Campbell, David S., Deutsch, Eric W., Chu, Caroline S., Spicer, Douglas A., Brusniak, Mi-Youn, Slagel, Joseph, Sun, Zhi, Stevens, Jeffrey, Grimes, Barbara, Shteynberg, David, Hoopmann, Michael R., Blattmann, Peter, Ratushny, Alexander V., Rinner, Oliver, Picotti, Paola, Carapito, Christine, Huang, Chung-Ying, Kapousouz, Meghan, Lam, Henry, Tran, Tommy, Demir, Emek, Aitchison, John D., Sander, Chris, Hood, Leroy, Aebersold, Ruedi, Moritz, Robert L.
• Format: Article
• Language: English
• Subjects: Access to Information; Antineoplastic Agents - therapeutic use; Cell Line, Tumor; Cholesterol - biosynthesis; Databases, Protein; Docetaxel; Female; Humans; Internet; Liver - drug effects; Male; Mutation; Prostatic Neoplasms - drug therapy; Proteome; RNA Splicing; Taxoids - therapeutic use
• ISSN: 0092-8674; 1097-4172
• DOI: 10.1016/j.cell.2016.06.041

The ability to reliably and reproducibly measure any protein of the human proteome in any tissue or cell type would be transformative for understanding systems-level properties as well as specific pathways in physiology and disease. Here, we describe the generation and verification of a compendium of highly specific assays that enable quantification of 99.7% of the 20,277 annotated human proteins by the widely accessible, sensitive, and robust targeted mass spectrometric method selected reaction monitoring, SRM. This human SRMAtlas provides definitive coordinates that conclusively identify the respective peptide in biological samples. We report data on 166,174 proteotypic peptides providing multiple, independent assays to quantify any human protein and numerous spliced variants, non-synonymous mutations, and post-translational modifications. The data are freely accessible as a resource at http://www.srmatlas.org/, and we demonstrate its utility by examining the network response to inhibition of cholesterol synthesis in liver cells and to docetaxel in prostate cancer lines. [Display omitted] •Human SRMAtlas: 166,174 proteotypic peptides representing the human proteome•Resource of verified high-resolution spectra and multiplexed SRM assays•Supports proteome-scale quantification as well as hypothesis-driven research•Web database with free unlimited access This resource enables the accurate detection and quantification of any known or predicted human protein from complex biological samples.