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

Ulrike Kusebauch, David S. Campbell, Eric W. Deutsch, Caroline S. Chu, Douglas A. Spicer, Mi Youn Brusniak, Joseph Slagel, Zhi Sun, Jeffrey Stevens, Barbara Grimes, David Shteynberg, Michael R. Hoopmann, Peter Blattmann, Alexander V. Ratushny, Oliver Rinner, Paola Picotti, Christine Carapito, Chung Ying Huang, Meghan Kapousouz, Henry LamTommy Tran, Emek Demir, John D. Aitchison, Chris Sander, Leroy Hood, Ruedi Aebersold, Robert L. Moritz

Research output: Contribution to journalArticle

149 Citations (Scopus)

Abstract

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.

Original languageEnglish (US)
Pages (from-to)766-778
Number of pages13
JournalCell
Volume166
Issue number3
DOIs
StatePublished - Jul 28 2016
Externally publishedYes

Fingerprint

Proteome
Assays
docetaxel
Peptides
Proteins
Physiology
Liver
Post Translational Protein Processing
Cholesterol
Tissue
Prostatic Neoplasms
Monitoring
Mutation

ASJC Scopus subject areas

  • Biochemistry, Genetics and Molecular Biology(all)

Cite this

Kusebauch, U., Campbell, D. S., Deutsch, E. W., Chu, C. S., Spicer, D. A., Brusniak, M. Y., ... Moritz, R. L. (2016). Human SRMAtlas: A Resource of Targeted Assays to Quantify the Complete Human Proteome. Cell, 166(3), 766-778. https://doi.org/10.1016/j.cell.2016.06.041

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

In: Cell, Vol. 166, No. 3, 28.07.2016, p. 766-778.

Research output: Contribution to journalArticle

Kusebauch, U, Campbell, DS, Deutsch, EW, Chu, CS, Spicer, DA, Brusniak, MY, Slagel, J, Sun, Z, Stevens, J, Grimes, B, Shteynberg, D, Hoopmann, MR, Blattmann, P, Ratushny, AV, Rinner, O, Picotti, P, Carapito, C, Huang, CY, Kapousouz, M, Lam, H, Tran, T, Demir, E, Aitchison, JD, Sander, C, Hood, L, Aebersold, R & Moritz, RL 2016, 'Human SRMAtlas: A Resource of Targeted Assays to Quantify the Complete Human Proteome', Cell, vol. 166, no. 3, pp. 766-778. https://doi.org/10.1016/j.cell.2016.06.041
Kusebauch U, Campbell DS, Deutsch EW, Chu CS, Spicer DA, Brusniak MY et al. Human SRMAtlas: A Resource of Targeted Assays to Quantify the Complete Human Proteome. Cell. 2016 Jul 28;166(3):766-778. https://doi.org/10.1016/j.cell.2016.06.041
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. / Human SRMAtlas : A Resource of Targeted Assays to Quantify the Complete Human Proteome. In: Cell. 2016 ; Vol. 166, No. 3. pp. 766-778.
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