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    The SysteMHC Atlas project.

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    Authors
    Shao, Wenguang
    Pedrioli, Patrick G A
    Wolski, Witold
    Scurtescu, Cristian
    Schmid, Emanuel
    Vizcaíno, Juan A
    Courcelles, Mathieu
    Schuster, Heiko
    Kowalewski, Daniel
    Marino, Fabio
    Arlehamn, Cecilia S L
    Vaughan, Kerrie
    Peters, Bjoern
    Sette, Alessandro
    Ottenhoff, Tom H M
    Meijgaarden, Krista E
    Nieuwenhuizen, Natalie
    Kaufmann, Stefan H E
    Schlapbach, Ralph
    Castle, John C
    Nesvizhskii, Alexey I
    Nielsen, Morten
    Deutsch, Eric W
    Campbell, David S
    Moritz, Robert L
    Zubarev, Roman A
    Ytterberg, Anders Jimmy
    Purcell, Anthony W
    Marcilla, Miguel
    Paradela, Alberto
    Wang, Qi
    Costello, Catherine E
    Ternette, Nicola
    van Veelen, Peter A
    van Els, Cécile A C M
    Heck, Albert J R
    de Souza, Gustavo A
    Sollid, Ludvig M
    Admon, Arie
    Stevanovic, Stefan
    Rammensee, Hans-Georg
    Thibault, Pierre
    Perreault, Claude
    Bassani-Sternberg, Michal
    Aebersold, Ruedi
    Caron, Etienne
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    Type
    Article
    Language
    en
    
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    Title
    The SysteMHC Atlas project.
    Published in
    Nucleic Acids Res 2018; 46(D1):1237-47
    Publiekssamenvatting
    Mass spectrometry (MS)-based immunopeptidomics investigates the repertoire of peptides presented at the cell surface by major histocompatibility complex (MHC) molecules. The broad clinical relevance of MHC-associated peptides, e.g. in precision medicine, provides a strong rationale for the large-scale generation of immunopeptidomic datasets and recent developments in MS-based peptide analysis technologies now support the generation of the required data. Importantly, the availability of diverse immunopeptidomic datasets has resulted in an increasing need to standardize, store and exchange this type of data to enable better collaborations among researchers, to advance the field more efficiently and to establish quality measures required for the meaningful comparison of datasets. Here we present the SysteMHC Atlas (https://systemhcatlas.org), a public database that aims at collecting, organizing, sharing, visualizing and exploring immunopeptidomic data generated by MS. The Atlas includes raw mass spectrometer output files collected from several laboratories around the globe, a catalog of context-specific datasets of MHC class I and class II peptides, standardized MHC allele-specific peptide spectral libraries consisting of consensus spectra calculated from repeat measurements of the same peptide sequence, and links to other proteomics and immunology databases. The SysteMHC Atlas project was created and will be further expanded using a uniform and open computational pipeline that controls the quality of peptide identifications and peptide annotations. Thus, the SysteMHC Atlas disseminates quality controlled immunopeptidomic information to the public domain and serves as a community resource toward the generation of a high-quality comprehensive map of the human immunopeptidome and the support of consistent measurement of immunopeptidomic sample cohorts.
    DOI
    10.1093/nar/gkx664
    PMID
    28985418
    URI
    http://hdl.handle.net/10029/621729
    ae974a485f413a2113503eed53cd6c53
    10.1093/nar/gkx664
    Scopus Count
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