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Milestone for the analysis of human proteomes

ProteomeTools: Synthetic peptides and spectra for proteomics

Date:
January 30, 2017
Source:
Technical University of Munich (TUM)
Summary:
Researchers report on the synthesis of a library of more than 330,000 reference peptides representing essentially all canonical proteins of the human proteome. It is a major milestone in the ProteomeTools project which aims at translating human proteome information into new molecular and digital tools with the potential for use in drug discovery, personalized medicine and life science research.
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Researchers led by the Technical University of Munich (TUM) report on the synthesis of a library of more than 330,000 reference peptides representing essentially all canonical proteins of the human proteome. It is a major milestone in the ProteomeTools project which aims at translating human proteome information into new molecular and digital tools with the potential for use in drug discovery, personalized medicine and life science research.

In a manuscript published online in Nature Methods, ProteomeTools scientists report on the synthesis of a library of more than 330,000 reference peptides (termed PROPEL for ProteomeTools Peptide Library) representing essentially all canonical proteins of the human proteome. All peptides were analysed by multi-modal liquid chromatography-tandem mass spectrometry (LC-MS/MS), creating a compendium of millions of very high quality reference spectra (termed PROSPECT for ProteomeTools Spectrum Compendium). The study illustrates the utility of these reagents and data to verify protein identifications from sparse observations and to predict the behaviour of peptides during liquid chromatography and tandem mass spectrometry.

Data is freely available to the global scientific community

The consortium of TUM, JPT Peptide Technologies (JPT), SAP and Thermo Fisher Scientific has made the vast quantity of data freely available to the scientific community via the data analytics platform ProteomicsDB and the data repository PRIDE to enable scientists and to foster collaboration around the globe.

Going forward, the ProteomeTools project will generate a further one million peptides and corresponding spectra with a focus on splice variants, cancer mutations and post-translational modifications such as phosphorylation, acetylation and ubiquitinylation.

Using the new resources, ProteomeTools scientists will study human proteomes with the aim of turning the vast amount of molecular information on the human proteome into new reagents, equipment, workflows, assays and software to enhance the application of proteomics in both science and medicine.

"ProteomeTools was started as a collaborative effort bringing together academic and industrial partners to make important contributions to the field of proteomics. It is gratifying to see that this work is now producing a wealth of significant results," says Professor Bernhard Kuster, Chair of Proteomics and Bioanalytics at TUM, and coordinator of the project.

Develop new and improve upon existing hardware, software and workflows

"Representing the human proteome by tandem mass spectra of synthetic peptides alleviates some of the current issues with protein identification and quantification. The libraries of peptides and spectra now allow us to develop new and improve upon existing hardware, software, workflows and reagents for proteomics. Making all the data available to the public provides a wonderful opportunity to exploit this resource beyond what a single laboratory can do. We are now reaching out to the community to suggest interesting sets of peptides to make and measure as well as to create LC-MS/MS data on platforms not available to the ProteomeTools consortium."


Story Source:

Materials provided by Technical University of Munich (TUM). Note: Content may be edited for style and length.


Journal Reference:

  1. Daniel P. Zolg, Mathias Wilhelm, Karsten Schnatbaum, Johannes Zerweck, Tobias Knaute, Bernard Delanghe, Derek J. Bailey, Siegfried Gessulat, Hans-Christian Ehrlich, Maximilian Weininger, Peng Yu, Judith Schlegl, Karl Kramer, Tobias Schmidt, Ulrike Kusebauch, Eric W. Deutsch, Ruedi Aebersold, Robert L. Moritz, Holger Wenschuh, Thomas Moehring, Stephan Aiche, Andreas Huhmer, Ulf Reimer and Bernhard Kuster. Building ProteomeTools based on a complete synthetic human proteome. Nature Methods, January 2017 DOI: 10.1038/nmeth.4153

Cite This Page:

Technical University of Munich (TUM). "Milestone for the analysis of human proteomes: ProteomeTools: Synthetic peptides and spectra for proteomics." ScienceDaily. ScienceDaily, 30 January 2017. <www.sciencedaily.com/releases/2017/01/170130133425.htm>.
Technical University of Munich (TUM). (2017, January 30). Milestone for the analysis of human proteomes: ProteomeTools: Synthetic peptides and spectra for proteomics. ScienceDaily. Retrieved March 23, 2017 from www.sciencedaily.com/releases/2017/01/170130133425.htm
Technical University of Munich (TUM). "Milestone for the analysis of human proteomes: ProteomeTools: Synthetic peptides and spectra for proteomics." ScienceDaily. www.sciencedaily.com/releases/2017/01/170130133425.htm (accessed March 23, 2017).