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HUPO Initiatives: C-HPP

Publications


Publications

  1. Overall, C.M. 2020. The HUPO High-stringency Inventory of Humanities Shared Human Proteome Revealed. Journal of Proteome Research 19, 4,211 – 4,214, doi/10.1021/acs.jproteome.0c00794.

  2. Overall, C.M. 2020. The Human Proteome: 90% in the Light — 10% on the Dark Side. Journal of Proteome Research 19, 4,731 – 4,735.

  3. Omenn, G.S., Lane, L., Overall, C.M., Cristea, I., Corrales, F., Lindskog, C., Paik, Y-K., Van Eyk, J., Liu, S., Snyder, M., Baker, M., Bandeira, N., Aebersold, R., Moritz, R., Deutsch, E. 2020. Research on The Human Proteome Reaches a Major Milestone: >90% of Predicted Human Proteins Now Credibly Detected, according to the HUPO Human Proteome Project. Journal of Proteome Research 19, 4,735 – 4,746. doi/10.1021/acs.jproteome.0c00485.

  4. Omenn, Gilbert;Lane, Lydie; Overall,Christopher;Corrales, Fernando;Schwenk, Jochen;Paik, Young-Ki; Van Eyk, Jennifer;Pennington, Stephen;Snyder, Michael; Baker, Mark; Deutsch, Eric. Progress on Identifying and Characterizing the Human Proteome: 2018-2019 Metrics from the HUPO Human Proteome Project.

  5. Jang, K. H., Yoon, H. N., Lee, J., Yi, H. et al., Liver disease-associated keratin 8 and 18 mutations modulate keratin acetylation and methylation. FASEB J. 33, 9030-9043 (2019).  PMID: 31199680

  6. Kopylov, A. T., Ponomarenko, E. A., Ilgisonis, E. V., Pyatnitskiy, M. A. et al., 200+ Protein Concentrations in Healthy Human Blood Plasma: Targeted Quantitative SRM SIS Screening of Chromosomes 18, 13, Y, and the Mitochondrial Chromosome Encoded Proteome. J. Proteome Res. 18, 120-129 (2019).  PMID: 30480452

  7. Paik, Y. K., Lane, L., Kawamura, T., Chen, Y. J. et al., Launching the C-HPP neXt-CP50 Pilot Project for Functional Characterization of Identified Proteins with No Known Function. J. Proteome Res. 17, 4042-4050 (2018).  PMID: 30269496

  8. Gilbert S. Omenn,Lydie Lane,Christopher M. Overall,Fernando J. Corrales, Jochen M. Schwenk, Young-Ki Paik, Jennifer E. Van Eyk, Siqi Liu, Michael Snyder, Mark S. Baker, and Eric W. Deutsch. J. Proteome Res. 2018, 17, 4031−4041 Progress on Identifying and Characterizing the Human Proteome: 2018 Metrics from the HUPO Human Proteome Project.

  9. Toward Completion of the Human Proteome Parts List: Progress Uncovering Proteins That Are Missing or Have Unknown Function and Developing Analytical Methods. J. Proteome Res. 2018, 17, 4023−4030

  10. Theo Klein, Ulrich Eckhard,Antoine Dufour,†Nestor Solis, and Christopher M. Overall. Proteolytic CleavageMechanisms, Function, and “Omic” Approaches for a Near-Ubiquitous Posttranslational Modification. Chem. Rev. 2018, 118, 1137−1168

  11. Nikolaus Fortelny, Christopher M. Overall, Paul Pavlidis & Gabriela V. Cohen Can we predict protein from mRNA levels? Nature 509, 582–587 (2014); doi:10.1038/nature13319: 27 July 2017 | VOL 547 | NATURE | e 1 9

  12. Paik, Y. K., Omenn, G. S., Hancock, W. S., Lane, L. & Overall, C. M., Advances in the Chromosome-Centric Human Proteome Project: looking to the future. Expert Rev Proteomics 14, 1059-1071 (2017).  PMID: 29039980

  13. Paik, Y. K., Overall, C. M., Deutsch, E. W., Van Eyk, J. E. & Omenn, G. S., Progress and Future Direction of Chromosome-Centric Human Proteome Project. J. Proteome Res. 16, 4253-4258 (2017).  PMID: 29191025

  14. Lee, J. Y., Lee, H. K., Park, G. W., Hwang, H. et al., Characterization of Site-Specific N-Glycopeptide Isoforms of α-1-Acid Glycoprotein from an Interlaboratory Study Using LC-MS/MS. J. Proteome Res. 15, 4146-4164 (2016).  PMID: 27760464

  15. Park, G. W., Hwang, H., Kim, K. H., Lee, J. Y. et al., Integrated Proteomic Pipeline Using Multiple Search Engines for a Proteogenomic Study with a Controlled Protein False Discovery Rate. J. Proteome Res. 15, 4082-4090 (2016).  PMID: 27537616

  16. Eric W. Deutsch,Christopher M. Overall,Jennifer E. Van Eyk, Mark S. Baker,Young-Ki Paik,Susan T. Weintraub,Lydie Lane,Lennart Martens,Yves Vandenbrouck,Ulrike Kusebauch, William S. Hancock, Henning Hermjakob, Ruedi Aebersold, Robert L. Moritz,and Gilbert S. Omenn. Human Proteome Project Mass Spectrometry Data Interpretation Guidelines 2.1. (2016) J. Proteome Res. 2016, 15, 3961−3970

  17. Gilbert S. Omenn, Lydie Lane, Emma K. Lundberg, Ronald C. Beavis, Christopher M. Overall, and Eric W. Deutsch. Metrics for the Human Proteome Project 2016: Progress on Identifying and Characterizing the Human Proteome, Including Post-Translational Modifications. J. Proteome Res. 2016, 15, 3951−3960 

  18. Cho, J. Y., Lee, H. J., Jeong, S. K., Kim, K. Y. et al., Combination of Multiple Spectral Libraries Improves the Current Search Methods Used to Identify Missing Proteins in the Chromosome-Centric Human Proteome Project. J. Proteome Res. 14, 4959-4966 (2015).  PMID: 26330117

  19. C.H. Borchers, J. Kast, L.J. Foster, K.W.M. Siu, C.M. Overall, T.A. Binkowski,W.H. Hildebrand, A. Scherer, M. Mansoor, P.A. Keowni. The Human Proteome Organization Chromosome 6 Consortium: Integrating chromosome-centric and biology/disease driven strategies Journal of Proteomics 100 (2014) 60 – 67

  20. Paik, Y. K. & Hancock, W. S., Uniting ENCODE with genome-wide proteomics. Nat. Biotechnol. 30, 1065-1067 (2012).  PMID: 23138303

  21. Paik, Y. K., Jeong, S. K., Omenn, G. S., Uhlen, M. et al., The Chromosome-Centric Human Proteome Project for cataloging proteins encoded in the genome. Nat. Biotechnol. 30, 221-223 (2012).  PMID: 22398612

  22. Na, K., Lee, M. J., Jeong, H. J., Kim, H. & Paik, Y. K., Differential gel-based proteomic approach for cancer biomarker discovery using human plasma. Methods Mol. Biol. 854, 223-237 (2012).  PMID: 22311764

  23. Legrain, P., Aebersold, R., Archakov, A., Bairoch, A. et al., The human proteome project: current state and future direction. Mol. Cell Proteomics 10, M111.009993 (2011).  PMID: 21742803

C-HPP Task Forces

  • Brain Proteome Project (HBPP)
  • Cancer
  • Cardiovascular
  • Chromosome Mitochondrial

Other HUPO INITIATIVES:

B/D-HPP

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HPP – Grand Challenge

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Technology

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Industrial Advisory Board (IAB) Members

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