An open-source computational and data resource to analyze digital maps of immunopeptidomes
- ETH Zürich, Switzerland
- University of Tübingen, Germany
- University of Oxford, United Kingdom
- Spanish National Biotechnology Centre, Spain
- Monash University, Australia
- Monash University, United States
- La Jolla Institute for Allergy and Immunology, United States
- University Medical Center of the Johannes Gutenberg University Mainz, Germany
- Pacific Northwest National Laboratory, United States
- Hong Kong University of Science and Technology, China
- Institute for Systems Biology, United States
Abstract
We present a novel mass spectrometry-based high-throughput workflow and an open-source computational and data resource to reproducibly identify and quantify HLA-associated peptides. Collectively, the resources support the generation of HLA allele-specific peptide assay libraries consisting of consensus fragment ion spectra, and the analysis of quantitative digital maps of HLA peptidomes generated from a range of biological sources by SWATH mass spectrometry (MS). This study represents the first community-based effort to develop a robust platform for the reproducible and quantitative measurement of the entire repertoire of peptides presented by HLA molecules, an essential step towards the design of efficient immunotherapies.
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Human subjects: Informed consent was obtained in accordance with the Declaration of Helsinki protocol. The study was performed according to the guidelines of the local ethics committee (University of Tubingen, Germany).
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© 2015, Caron et al.
This article is distributed under the terms of the Creative Commons Attribution License permitting unrestricted use and redistribution provided that the original author and source are credited.
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An open-source computational and data resource to analyze digital maps of immunopeptidomes
eLife 4:e07661.
https://doi.org/10.7554/eLife.07661
