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ProteomicsThunder-DDA-PASEF boosted by MS2rescore enables high-coverage immunopeptidomics and identifies HLA class-I presented SarsCoV-2 spike protein epitopes
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) 
2024-03-19 | PXD046543 | Pride
Ms2rescore Immunopeptidomics Thunder-dda-pasef Timstof pro 
ProteomicsThunder-DDA-PASEF boosted by MS2rescore enables high-coverage immunopeptidomics and identifies HLA class-I presented SarsCoV-2 spike protein epitopes
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) 
2024-03-19 | PXD046535 | Pride
Ms2rescore Immunopeptidomics Thunder-dda-pasef Timstof pro 
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
GenomicsBenchmarking Software for DDA-PASEF Immunopeptidomics
Benchmarking Software for DDA-PASEF Immunopeptidomics
PRJEB98909 | ENA
ProteomicsBenchmarking Software for DDA-PASEF Immunopeptidomics
Mass spectrometry (MS) is the method of choice for high-throughput identification of immunopeptides, which are generated by intracellular proteases, unlike proteomics peptides that are typically derived from trypsin-digested proteins. This distinction necessitates searching without the constraints o...
ORGANISM(S): Homo Sapiens (human) 
2026-06-26 | PXD065501 | JPOST Repository
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