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

被引：84

作者：

Caron, Etienne ^{[1
]}

Espona, Lucia ^{[1
]}

Kowalewski, Daniel J. ^{[2
,3
]}

Schuster, Heiko ^{[2
,3
]}

Ternette, Nicola ^{[4
]}

Alpizar, Adan ^{[5
]}

Schittenhelm, Ralf B. ^{[6
]}

Ramarathinam, Sri H. ^{[6
]}

Arlehamn, Cecilia S. Lindestam ^{[7
]}

Koh, Ching Chiek ^{[1
]}

Gillet, Ludovic C. ^{[1
]}

Rabsteyn, Armin ^{[2
]}

Navarro, Pedro ^{[8
]}

Kim, Sangtae ^{[9
]}

Lam, Henry ^{[10
,11
]}

Sturm, Theo ^{[1
]}

Marcilla, Miguel ^{[5
]}

Sette, Alessandro ^{[7
]}

Campbell, David S. ^{[12
]}

Deutsch, Eric W. ^{[12
]}

Moritz, Robert L. ^{[12
]}

Purcell, Anthony W. ^{[6
]}

Rammensee, Hans-Georg ^{[2
,3
]}

Stevanovic, Stefan ^{[2
,3
]}

Aebersold, Ruedi ^{[1
,13
]}

机构：

[1] ETH, Inst Mol Syst Biol, Dept Biol, Zurich, Switzerland

[2] Univ Tubingen, Dept Immunol, Interfac Inst Cell Biol, Tubingen, Germany

[3] German Canc Consortium, DKFZ Partner Site Tubingen, Tubingen, Germany

[4] Univ Oxford, Target Discovery Inst, Mass Spectrometry Lab, Oxford, England

[5] Spanish Natl Biotechnol Ctr, Prote Unit, Madrid, Spain

[6] Monash Univ, Dept Biochem & Mol Biol, Clayton, Vic, Australia

[7] La Jolla Inst Allergy & Immunol, La Jolla, CA USA

[8] Johannes Gutenberg Univ Mainz, Inst Immunol, Univ Med Ctr, Mainz, Germany

[9] Pacific NW Natl Lab, Richland, WA 99352 USA

[10] Hong Kong Univ Sci & Technol, Div Biomed Engn, Hong Kong, Hong Kong, Peoples R China

[11] Hong Kong Univ Sci & Technol, Dept Chem & Biomol Engn, Hong Kong, Hong Kong, Peoples R China

[12] Inst Syst Biol, Seattle, WA USA

[13] Univ Zurich, Fac Sci, Zurich, Switzerland

来源：

ELIFE | 2015年 / 4卷

基金：

美国国家卫生研究院; 英国医学研究理事会; 欧洲研究理事会;

关键词：

SWATH-MASS-SPECTROMETRY; CANCER-IMMUNOTHERAPY; BINDING PREDICTIONS; TARGETED ANALYSIS; MS DATA; PEPTIDES; PROTEOMICS; SEARCH; IDENTIFICATIONS; REPERTOIRE;

D O I：

10.7554/eLife.07661

中图分类号：

Q [生物科学];

学科分类号：

090105 [作物生产系统与生态工程];

摘要：

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.

引用

页码：1 / 17

页数：17

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