Table 2.

Gene symbolEntrez gene IDPeptide sequenceGene title
A. HLA-DR ligands isolated from RCC190
    ACTG171WISKQEYDESGPSIVHRKCFActin, γ 1 propeptide
    ALB213LKKYLYEIARRHPAlbumin precursor
    ALB213TLVEVSRNLGKVGAlbumin precursor
    ALB213TPTLVEVSRNLGKVGSAlbumin precursor
    APOA2336EKSKEQLTPLIKKAGTELVNFApolipoprotein A-II precursor
    APOB338YPKSLHMYANRLLDHRApolipoprotein B precursor
    C1R715EPYYKMQTRAGSREComplement component 1, r subcomponent
    C4B721APPSGGPGFLSIERPDSRPPComplement component 4B proprotein
    C4BPA722FGPIYNYKDTIVFKComplement component 4 binding protein, α
    CALR811SPDPSIYAYDNFCalreticulin precursor
    CALR811EPPVIQNPEYKGEWKPRQIDNPDCalreticulin precursor
    CFL11072GVIKVFNDMKVRKCofilin 1 (non-muscle)
    CPE1363APGYLAITKKVAVPYCarboxypeptidase E precursor
    FCGBP8857ASVDLKNTGREEFLTAFc fragment of IgG binding protein
    FCN12219GNHQFAKYKSFKVADEFicolin 1 precursor
    FTL2512VSHFFRELAEEKREGFerritin, light polypeptide
    FTL2512TPDAMKAAMALEKKFerritin, light polypeptide
    GAPD2597FVMGVNHEKYDNGlyceraldehyde-3-phosphate dehydrogenase
    GAPD2597TGVFTTMEKAGAHGlyceraldehyde-3-phosphate dehydrogenase
    GAPD2597ISWYDNEFGYSNRVVDLMAHMASKEGlyceraldehyde-3-phosphate dehydrogenase
    HIST1H1C3006GTGASGSFKLNKKAASGEAKPKH1 histone family, member 2
    HLA-DQB13119DVGVYRAVTPQGRPDMHC, class II, DQ β 1 precursor
    HLA-DRB13123DVGEFRAVTELGRPDMHC, class II, DR β 1 precursor
    IGFBP33486HPLHSKIIIIKKGHAKInsulin-like growth factor binding protein 3
    KNG13827DKDLFKAVDAALKKKininogen 1
    NPC210577KDKTYSYLNKLPVKNiemann-Pick disease, type C2 precursor
    S100A86279VIKMGVAAHKKSHEESHKES100 calcium-binding protein A8
    SERPINA15265MIEQNTKSPLFMGKVVNPTQKSerine (or cysteine) proteinase inhibitor, clade A (α-1 antiproteinase, antitrypsin), member 1
    SOD16647GPHFNPLSRKHGGPKSuperoxide dismutase 1, soluble
    TF7018DPQTFYYAVAVVKKDSTransferrin
B. Natural presented HLA-DR ligands used for generating antigen-specific CD4+ T cells
    IGFBP33486HSKIIIIKKGHAKInsulin-like growth factor binding protein 3
    MMP74316SQDDIKGIQKLYGKRSMatrix metallo proteinase 7
    CCND1595NPPSMVAAGSVVAAVCyclin D1
  • NOTE: The core sequences of HLA-DR ligands isolated from RCC190 (HLA-DRB1*11, DRB1*15, and DRB3, DRB5) are shown. The complete list of identified ligands is displayed in Supplementary Table S2.