An open-source computational and data resource to analyze digital maps of immunopeptidomes

E Caron, L Espona, DJ Kowalewski, H Schuster… - Elife, 2015 - elifesciences.org
E Caron, L Espona, DJ Kowalewski, H Schuster, N Ternette, A Alpízar, RB Schittenhelm
Elife, 2015elifesciences.org
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 …
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.
DOI: http://dx.doi.org/10.7554/eLife.07661.001
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