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PathMHC: a workflow to selectively target pathogen-derived MHC peptides in discovery immunopeptidomics experiments for vaccine target identificationPreprint

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Immunopeptidomics informs discovery and delivery of Mycobacterium tuberculosis MHC-II antigens for vaccine designPreprint

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Immunoproteomics: The Evolution from Classical Methods to Emerging Techniques

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Targeted Analyses of MHC-I Peptides Using TOMAHAQ

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Rab5 improves CAR T cell efficacy via reducing fratricide and maintaining surface CAR levels

Gu, M., Read, K. A., Bhardwaj, V., Carvalho, E. J., Nardo, D., Shayne, J. C., Shukla, D., Liu, W., Siegel, D. L., Sheppard, N. C., et al. (2026) · The Journal of Experimental Medicine · doi:10.1084/jem.20252564 · Cited by 1 · see citing works

Mapping the functional dark proteome in cancer

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Exact p‐value calculation for XCorr scoring of high‐resolution MS/MS data

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Deciphering the tumor-specific immunopeptidome in vivo with genetically engineered mouse modelsPreprint

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AI-enabled virtual immunopeptidomics links quantitative neoantigen presentation to immunogenicityPreprint

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An innovative approach for HLA typing, molecular tumor testing and the validation of tumor exclusive antigensPreprint

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Data from Chimeric Antigen Receptors Directed at Mutant KRAS Exhibit an Inverse Relationship Between Functional Potency and Neoantigen Selectivity

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Harnessing immunopeptidomics for next-generation vaccines against intracellular bacterial pathogens

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Single amino acid variation identification in high resolution tandem mass spectrometry data in bottom up proteomics

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Targeting Kinases to Reshape the Immunopeptidome landscape in Chronic Myeloid LeukemiaPreprint

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Systems analysis uncovers early temozolomide responses and peptide antigens in glioblastomaPreprint

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Control of antigen presentation on MHC-I by a bacterial secretion systemPreprint

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Learning the Principles of T Cell Antigen Discernment

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Analysis of tumor-derived and cross-presented peptide antigens defines improved immunotherapeutic strategiesPreprint

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Kinase inhibition rewires the HLA-I immunopeptidome in chronic myeloid leukemia

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Multiplexed Relative Quantitation with Isobaric Tagging Mass Spectrometry Reveals Class I Major Histocompatibility Complex Ligand Dynamics in Response to Doxorubicin

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1235 Abemaciclib differentially reshapes the immunopeptidome of breast cancer subtypes

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SILAC-based quantification reveals modulation of the immunopeptidome in BRAF and MEK inhibitor sensitive and resistant melanoma cells

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MHCquant2 refines immunopeptidomics tumor antigen discoveryPreprint

Scheid, J., Lemke, S., Gravel, N. H., Dengler, A., Sachsenberg, T. T., Declercq, A., Gabriels, R., Bauer, J., Wacker, M., Bichmann, L., et al. (2024) · Research Square · doi:10.21203/rs.3.rs-5560023/v1 · Cited by 2 · see citing works

SILAC-based quantification reveals modulation of the immunopeptidome in BRAF and MEK inhibitor sensitive and resistant tumor cellsPreprint

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