Sökning: WFRF:(Litchfield Kevin) >
The Immunopeptidome...
The Immunopeptidome from a Genomic Perspective : Establishing the Noncanonical Landscape of MHC Class I–Associated Peptides
-
- Bedran, Georges (författare)
- University of Gdansk
-
- Gasser, Hans Christof (författare)
- University of Edinburgh
-
- Weke, Kenneth (författare)
- University of Gdansk
-
visa fler...
-
- Wang, Tongjie (författare)
- University of Edinburgh
-
- Bedran, Dominika (författare)
- University of Gdansk
-
- Laird, Alexander (författare)
- University of Edinburgh,Western General Hospital
-
- Battail, Christophe (författare)
- University Grenoble Alpes
-
- Zanzotto, Fabio Massimo (författare)
- University of Rome Tor Vergata
-
- Pesquita, Catia (författare)
- NOVA University Lisbon
-
- Axelson, Hákan (författare)
- Lund University,Lunds universitet,Avdelningen för translationell cancerforskning,Institutionen för laboratoriemedicin,Medicinska fakulteten,Njurcancergruppen,Forskargrupper vid Lunds universitet,LUCC: Lunds universitets cancercentrum,Övriga starka forskningsmiljöer,Division of Translational Cancer Research,Department of Laboratory Medicine,Faculty of Medicine,Kidney cancer research group,Lund University Research Groups,LUCC: Lund University Cancer Centre,Other Strong Research Environments
-
- Rajan, Ajitha (författare)
- University of Edinburgh
-
Harrison, David J. (författare)
-
- Palkowski, Aleksander (författare)
- University of Gdansk
-
Pawlik, Maciej (författare)
-
- Parys, Maciej (författare)
- The Royal (Dick) School of Veterinary Studies
-
- O’Neill, J. Robert (författare)
- Cambridge University Hospitals NHS Foundation Trust
-
- Brennan, Paul M. (författare)
- University of Edinburgh
-
- Symeonides, Stefan N. (författare)
- University of Edinburgh
-
- Goodlett, David R. (författare)
- University of Victoria,University of Gdansk
-
- Litchfield, Kevin (författare)
- University College London
-
- Fahraeus, Robin (författare)
- Institut Gustave Roussy,University of Gdansk
-
- Hupp, Ted R. (författare)
- University of Edinburgh,University of Gdansk
-
- Kote, Sachin (författare)
- University of Gdansk
-
- Alfaro, Javier A. (författare)
- University of Edinburgh,University of Victoria,University of Gdansk
-
visa färre...
-
(creator_code:org_t)
- 2023
- 2023
- Engelska 21 s.
-
Ingår i: Cancer immunology research. - 2326-6066. ; 11:6, s. 742-762
- Relaterad länk:
-
http://dx.doi.org/10... (free)
-
visa fler...
-
https://lup.lub.lu.s...
-
https://doi.org/10.1...
-
visa färre...
Abstract
Ämnesord
Stäng
- Tumor antigens can emerge through multiple mechanisms, including translation of noncoding genomic regions. This noncanonical category of tumor antigens has recently gained attention; however, our understanding of how they recur within and between cancer types is still in its infancy. Therefore, we developed a proteogenomic pipeline based on deep learning de novo mass spectrometry (MS) to enable the discovery of noncanonical MHC class I–associated peptides (ncMAP) from noncoding regions. Considering that the emergence of tumor antigens can also involve posttranslational modifications (PTM), we included an open search component in our pipeline. Leveraging the wealth of MS-based immunopeptidomics, we analyzed data from 26 MHC class I immunopeptidomic studies across 11 different cancer types. We validated the de novo identified ncMAPs, along with the most abundant PTMs, using spectral matching and controlled their FDR to 1%. The noncanonical presentation appeared to be 5 times enriched for the A03 HLA supertype, with a projected population coverage of 55%. The data reveal an atlas of 8,601 ncMAPs with varying levels of cancer selectivity and suggest 17 cancer-selective ncMAPs as attractive therapeutic targets according to a stringent cutoff. In summary, the combination of the open-source pipeline and the atlas of ncMAPs reported herein could facilitate the identification and screening of ncMAPs as targets for T-cell therapies or vaccine development.
Ämnesord
- NATURVETENSKAP -- Biologi -- Biokemi och molekylärbiologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Biochemistry and Molecular Biology (hsv//eng)
Publikations- och innehållstyp
- art (ämneskategori)
- ref (ämneskategori)
Hitta via bibliotek
Till lärosätets databas
- Av författaren/redakt...
-
Bedran, Georges
-
Gasser, Hans Chr ...
-
Weke, Kenneth
-
Wang, Tongjie
-
Bedran, Dominika
-
Laird, Alexander
-
visa fler...
-
Battail, Christo ...
-
Zanzotto, Fabio ...
-
Pesquita, Catia
-
Axelson, Hákan
-
Rajan, Ajitha
-
Harrison, David ...
-
Palkowski, Aleks ...
-
Pawlik, Maciej
-
Parys, Maciej
-
O’Neill, J. Robe ...
-
Brennan, Paul M.
-
Symeonides, Stef ...
-
Goodlett, David ...
-
Litchfield, Kevi ...
-
Fahraeus, Robin
-
Hupp, Ted R.
-
Kote, Sachin
-
Alfaro, Javier A ...
-
visa färre...
- Om ämnet
-
- NATURVETENSKAP
-
NATURVETENSKAP
-
och Biologi
-
och Biokemi och mole ...
- Artiklar i publikationen
-
Cancer immunolog ...
- Av lärosätet
-
Lunds universitet