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ProteomicsSAPrIm 2.0: A semi-automated protocol for mid-throughput soluble HLA immunopeptidomics
Human leukocyte antigen (HLA) molecules are pivotal in guiding human adaptive immune responses through their presentation of peptide ligands, collectively known as the immunopeptidome. This process is central to the development of cancer immunotherapies, such as vaccines and T-cell therapies. Profil...
ORGANISM(S): Homo sapiens (Human) 
2025-05-26 | PXD058880 | Pride
Shla Hla Mass spectrometry Mhc Saprim Immunopeptidomics Soluble hla Plasma immunopeptidomics 
ProteomicsTIMS²Rescore: A DDA-PASEF optimized data-driven rescoring pipeline based on MS²Rescore - Plasma proteomics
The high throughput analysis of proteins with mass spectrometry (MS) is highly valuable for understanding human biology, discovering disease biomarkers, identifying therapeutic targets, and exploring pathogen interactions. To achieve these goals, specialized proteomics subfields – such as plasma pro...
ORGANISM(S): Homo sapiens (Human) 
2025-02-17 | PXD053748 | Pride
Plasma Data-driven rescoring 
ProteomicsThunder-DDA-PASEF enables high-coverage immunopeptidomics and is boosted by MS2Rescore with novel MS2PIP timsTOF fragmentation prediction model
Human leukocyte antigen (HLA) class I peptide ligands (HLAIps) are key targets for developing vaccines and immunotherapies against infectious pathogens or cancer cells. Identifying HLAIps is challenging due to their high diversity, low abundance, and patient individuality. Here, we developed a highl...
ORGANISM(S): Homo Sapiens (human) 
2024-03-18 | PXD040385 | JPOST Repository
ProteomicsThe potential of plasma HLA peptides in diagnostic and therapy beyond neoepitopes
Distinction of non-self from self is the major task of the immune system. Immunopeptidomics studies the peptide repertoire presented by the human leukocyte antigen (HLA) protein, usually on tissues. However, HLA peptides are also bound to plasma soluble HLA (sHLA), but little is known about their or...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2023-07-31 | MSV000092557 | MassIVE
ProteomicsMHCquant: Automated and reproducible data analysis for immunopeptidomics
Personalized multi-peptide vaccines are currently being discussed intensively for tumor immunotherapy. In order to find epitopes - short, immunogenic peptides - suitable to elicit an immune response, human leukocyte antigen-presented peptides from cancer tissue samples are purified using immunoaffin...
ORGANISM(S): Homo sapiens (Human) 
2019-10-14 | PXD011628 | Pride
Human Mhc Benchmark 
ProteomicsTumor-associated peptides can be detected from the plasma-derived soluble immunopeptidome in human hepatocellular carcinoma patients – A pre-clinical study on the correlation of the soluble and hepatocellular carcinoma-derived membranous immunopeptidomes.
Abstract Background and aims. Hepatocellular carcinoma (HCC) shows limited response to checkpoint inhibitors, leaving opportunity for antigen-based immunotherapy and improved disease monitoring. This study evaluates plasma-derived soluble HLA-I (sHLA-I) peptidome as a minimally invasive source of tu...
ORGANISM(S): Homo sapiens (Human) 
2025-10-15 | PXD066255 | Pride
Hepatocellular carcinoma Immunopeptidomics Soluble hla Shla 
UnknownDendritic cell-mediated cross presentation of tumor-derived peptides is biased against plasma membrane proteins.
Not available
S-EPMC9277371 | biostudies-literature
UnknownTIMS<sup>2</sup>Rescore: A Data Dependent Acquisition-Parallel Accumulation and Serial Fragmentation-Optimized Data-Driven Rescoring Pipeline Based on MS<sup>2</sup>Rescore.
Not available
S-EPMC11894666 | biostudies-literature
UnknownAllotype-Specific Glycosylation and Cellular Localization of Human Leukocyte Antigen Class I Proteins.
Not available
S-EPMC8419865 | biostudies-literature
UnknowndiaTracer enables spectrum-centric analysis of diaPASEF proteomics data.
Not available
S-EPMC11696033 | biostudies-literature
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