Table 1

Immune-related genes (as identified by WEBGESTALT) differentially regulated between matched, doubly loaded DCs and DCs loaded by any other method

Gene function/geneRegulationCohen's dqFunction
Cell survival     
    TNFRSF9 Down 8.67 < 0.002 Induction of cell death 
    IL-2Rβ Up 7.73 < 0.009 Inhibition of cell death 
    IL-1α Down 4.76 < 0.002 Multiple (including survival) 
    CLU (2) Up 3.39 < 0.001 Multiple (including survival) 
Antigen presentation     
    IGλ locus Up 6.72 < 0.0007 MHC I antigen presentation 
    IGHμ Up 4.14 < 0.008 MHC I antigen presentation 
    HLA-DRβ1/ DRβ3 Down 3.80 < 0.004 MHC II antigen presentation 
    HLA-DQα1 (2) Down 3.33 < 0.00005 MHC II antigen presentation 
    CIITA Down 3.32 < 0.001 MHC II antigen presentation (TF) 
    CD1b Up 3.02 < 0.0003 Lipid antigen presentation 
    HLA-DQβ1 (2) Down 2.99 < 0.0002 MHC II antigen presentation 
    G1P2 Up 2.71 < 0.0002 IFNα-inducible signal transduction 
    CBLB (3) Down 2.24 < 0.002 Ubiquitination 
T-cell regulation     
    CTLA-4 (2) Down 3.32 < 0.0003 Induction of T-cell anergy 
    CD40 (2) Up 2.57 < 0.0006 CD8+ T-cell priming 
    IL-23α Down 1.84 < 0.00002 Inhibition of CD8+ responses 
Antiviral response     
    TRIM22 Up 3.74 < 0.001 Antiviral response (TF) 
    PRKRA Down 3.54 < 0.0006 dsRNA antiviral response 
    CTBP1 Down 3.04 < 0.008 Viral genome replication 
    IRF1 Down 2.37 < 0.004 Regulation of IFN-inducible response 
    MX2 Up 2.32 < 0.0008 Antiviral response 
    MX1 Up 2.08 < 0.0004 Antiviral response 
    CCL4 Down 1.74 < 0.004 Chemotaxis and viral replication 
    IFI27 Up 1.69 < 0.004 IFN-inducible immune response 
    GBP2 Down 1.53 < 0.002 IFN-inducible immune response 
T-helper polarization     
    TLR-4 Up 4.50 < 0.004 Pathogen detection and up-regulation of Th-1 responses 
    PTAFR Down 4.02 < 0.002 Humoral immunity 
    COLEC12 Down 3.92 < 0.003 Humoral immunity 
    LILR-B2 Down 3.82 < 0.0002 Humoral immunity 
    LY9 Down 3.45 < 0.002 Humoral immunity 
    CCL26 Down 3.14 < 0.0000007 Th-2 response (eosinophil chemotaxis) 
    MYD88 Up 3.12 < 0.002 TLR signal transduction 
Other immune-related     
    DCLRE1C Down 5.49 < 0.0008 DNA damage repair 
    XBP1 Down 2.83 < 0.0005 Transcription factor 
    IL-1R1 Down 2.52 < 0.0004 Signal transduction 
    MS4A1 Up 2.52 < 0.01 Intracellular signal transduction 
    FUS Down 2.27 < 0.002 Nucleic acid binding 
    OAS2 Up 2.14 < 0.0005 Microsomal nucleic acid metabolism 
    LST1 (2) Up 2.04 < 0.004 Dendrite morphogenesis 
    C1Qβ Up 1.88 < 0.0006 Complement activation 
    CRH Down 1.88 < 0.0006 Synaptic transmission 
    LIL-RA3 Up 1.34 < 0.001 Antigen binding 
    C1Qα Up 1.32 < 0.004 Complement activation 
Gene function/geneRegulationCohen's dqFunction
Cell survival     
    TNFRSF9 Down 8.67 < 0.002 Induction of cell death 
    IL-2Rβ Up 7.73 < 0.009 Inhibition of cell death 
    IL-1α Down 4.76 < 0.002 Multiple (including survival) 
    CLU (2) Up 3.39 < 0.001 Multiple (including survival) 
Antigen presentation     
    IGλ locus Up 6.72 < 0.0007 MHC I antigen presentation 
    IGHμ Up 4.14 < 0.008 MHC I antigen presentation 
    HLA-DRβ1/ DRβ3 Down 3.80 < 0.004 MHC II antigen presentation 
    HLA-DQα1 (2) Down 3.33 < 0.00005 MHC II antigen presentation 
    CIITA Down 3.32 < 0.001 MHC II antigen presentation (TF) 
    CD1b Up 3.02 < 0.0003 Lipid antigen presentation 
    HLA-DQβ1 (2) Down 2.99 < 0.0002 MHC II antigen presentation 
    G1P2 Up 2.71 < 0.0002 IFNα-inducible signal transduction 
    CBLB (3) Down 2.24 < 0.002 Ubiquitination 
T-cell regulation     
    CTLA-4 (2) Down 3.32 < 0.0003 Induction of T-cell anergy 
    CD40 (2) Up 2.57 < 0.0006 CD8+ T-cell priming 
    IL-23α Down 1.84 < 0.00002 Inhibition of CD8+ responses 
Antiviral response     
    TRIM22 Up 3.74 < 0.001 Antiviral response (TF) 
    PRKRA Down 3.54 < 0.0006 dsRNA antiviral response 
    CTBP1 Down 3.04 < 0.008 Viral genome replication 
    IRF1 Down 2.37 < 0.004 Regulation of IFN-inducible response 
    MX2 Up 2.32 < 0.0008 Antiviral response 
    MX1 Up 2.08 < 0.0004 Antiviral response 
    CCL4 Down 1.74 < 0.004 Chemotaxis and viral replication 
    IFI27 Up 1.69 < 0.004 IFN-inducible immune response 
    GBP2 Down 1.53 < 0.002 IFN-inducible immune response 
T-helper polarization     
    TLR-4 Up 4.50 < 0.004 Pathogen detection and up-regulation of Th-1 responses 
    PTAFR Down 4.02 < 0.002 Humoral immunity 
    COLEC12 Down 3.92 < 0.003 Humoral immunity 
    LILR-B2 Down 3.82 < 0.0002 Humoral immunity 
    LY9 Down 3.45 < 0.002 Humoral immunity 
    CCL26 Down 3.14 < 0.0000007 Th-2 response (eosinophil chemotaxis) 
    MYD88 Up 3.12 < 0.002 TLR signal transduction 
Other immune-related     
    DCLRE1C Down 5.49 < 0.0008 DNA damage repair 
    XBP1 Down 2.83 < 0.0005 Transcription factor 
    IL-1R1 Down 2.52 < 0.0004 Signal transduction 
    MS4A1 Up 2.52 < 0.01 Intracellular signal transduction 
    FUS Down 2.27 < 0.002 Nucleic acid binding 
    OAS2 Up 2.14 < 0.0005 Microsomal nucleic acid metabolism 
    LST1 (2) Up 2.04 < 0.004 Dendrite morphogenesis 
    C1Qβ Up 1.88 < 0.0006 Complement activation 
    CRH Down 1.88 < 0.0006 Synaptic transmission 
    LIL-RA3 Up 1.34 < 0.001 Antigen binding 
    C1Qα Up 1.32 < 0.004 Complement activation 

The number of different transcripts detected is listed within parentheses next to each gene.

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