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ProteomicsMHC class I loaded ligands from breast cancer cell lines: A potential HLA-I-typed antigen collection
We sought to build a catalog of epitopes presented by breast cancers using a renewable resource of well-characterized breast cancer cell lines. Starting from 70 breast cancer cell lines, we measured MHC class I abundance and used pre-existing RNAseq data to identify either HLA-A*02 or MHC class I-po...
ORGANISM(S): Homo sapiens (Human) 
2018-01-16 | PXD006406 | Pride
Immune system Mass spectrometry Human Mhc class 1 ligands Hla typing Peptide sequencing Breast cancer Cell lines Immunoprecipitation Rna-seq 
ProteomicsA lysine residue at the C-terminus of MHC class I ligands correlates with low C-terminal proteasomal cleavage probability
The majority of peptides presented by MHC class I results from proteasomal protein turnover. The specialized immunoproteasome, which is induced during inflammation, plays a major role in antigenic peptide generation. However, other cellular proteases can, either alone or together with the proteasome...
ORGANISM(S): Homo sapiens (Human) 
2023-10-24 | PXD044235 | Pride
Immunopeptidomics  proteasome-independent  non-canonical mhc class i ligands  hla-a*03:01  hla-a*11:01  hla-a*30:01  proteasomal cleavage probability  peptide origin  peptide processing 
ProteomicsIdentification of MHC ligands through allele guided isolation combined with machine learning for specific MHC assignment
Isolation of MHC ligands and subsequent analysis by mass spectrometry is considered the gold standard for defining targets for T cell-based immunotherapies. However, as many targets of high tumor-specificity are only presented at low abundance on the cell surface of tumor cells, the efficient isolat...
ORGANISM(S): Homo sapiens (Human) 
2026-06-08 | PXD061101 | Pride
Hla assignment Machine learning Immunopeptidome 
ProteomicsMild acid elution and MHC immunoaffinity chromatography reveal similar albeit not identical profiles of the HLA immunopeptidome
To understand and treat immunology-related diseases, a comprehensive, unbiased characterization of major histocompatibility complex (MHC) peptide ligands is of key importance. Preceding the analysis by mass spectrometry, MHC peptide ligands are typically isolated by MHC immunoaffinity chromatography...
ORGANISM(S): Homo sapiens (Human) 
2020-11-11 | PXD012771 | Pride
Mhc immunoaffinity chromatography Cid Post-translational modification Hla ligandome Mild acid elution Cysteinylation Mhc bound peptides 
ProteomicsPre-fractionation extends, but creates a bias in the detectable HLA class Ι ligandome
HLA class Ι molecules on the cell surface enable CD8+ T lymphocytes to recognize cellular alterations in the form of antigens, including mutations, protein copy number alterations, aberrant post-translational modifications or pathogen proteins. At any given moment, tens of thousands of different sel...
ORGANISM(S): Homo sapiens (Human) 
2019-02-25 | PXD011257 | Pride
Hla class ι ligandome  hla class ι peptide ligands  high ph reversed phase  strong cation exchange  pre-fractionation 
ProteomicsReshaping of the MHC-I ligandome in response to reovirus-based cancer immunotherapy
Oncolytic viruses (OVs), known for their cancer-killing characteristics, overturn tumor-associated defects in antigen presentation through the MHC class I pathway and induce protective neo antitumor CD8 T cell responses. Nonetheless, whether OVs shape the tumor MHC-I ligandome remains unknown. Here,...
ORGANISM(S): Mus musculus (Mouse) 
2019-05-20 | PXD013066 | Pride
Antitumor immunity Reovirus Mhc ligandome Mass spectrometry Cancer immunotherapy Cd8 t cell epitopes Oncolytic virus 
ProteomicsC1R.B*57:03 MHC class I immunopeptidome LC-MSMS
Characterisation of peptide ligands of Major histocompatibility class (MHC) I isolated by immunoaffinity purification from the C1R (Class I reduced) B-lymphoblastoid cell line, transfected with the MHC class I allele HLA-B*57:03.
ORGANISM(S): Homo sapiens (Human) 
2018-10-24 | PXD008571 | Pride
Lc-msms Hla-b*57:03 Mhc Immunopeptidome 
ProteomicsC1R.B*57:01 MHC class I immunopeptidome LC-MSMS
Characterisation of peptide ligands of Major histocompatibility class (MHC) I isolated by immunoaffinity purification from the C1R (Class I reduced) B-lymphoblastoid cell line, transfected with the MHC class I allele HLA-B*57:01.
ORGANISM(S): Homo sapiens (Human) 
2018-10-24 | PXD008570 | Pride
Lc-msms Hla-b*57:01 Mhc Immunopeptidome 
ProteomicsC1R.B*58:01 MHC class I immunopeptidome LC-MSMS
Characterisation of peptide ligands of Major histocompatibility class (MHC) I isolated by immunoaffinity purification from the C1R (Class I reduced) B-lymphoblastoid cell line, transfected with the MHC class I allele HLA-B*58:01.
ORGANISM(S): Homo sapiens (Human) 
2018-10-24 | PXD008572 | Pride
Hla-b*58:01 Lc-msms Mhc Immunopeptidome 
ProteomicsMHC immunopeptidome of JY cells analysed by EThcD or HCD at Orbitrap Fusion after mild acid elution
To understand and treat immunology-related diseases, a comprehensive, unbiased characterization of major histocompatibility complex (MHC) peptide ligands is of key importance. Preceding the analysis by mass spectrometry, MHC peptide ligands are typically isolated by MHC immunoaffinity chromatography...
ORGANISM(S): Homo sapiens (Human) 
2020-11-11 | PXD012437 | Pride
Post-translational modification Ethcd Hcd Hla ligandome Mild acid elution Cysteinylation Mhc bound peptides 
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