TABLE 3.

Gene expression in SARS patients at crisis

Gene product designation (by function or type)Name/descriptionUnigene designationMean gene expression ratio for patients with an SO2 ofa:PCell type(s) expressing proteinMean adjusted gene expression ratio for patients with an SO2 of <91%bP
≥91%<91%
Antigen presentation
    HLA-BMajor histocompatibility complex I-BHs.77961−0.55−1.400.014Leukocyte−1.750.001
    HLA-DPA1Major histocompatibility complex II-DP alpha 1Hs.347270−1.31−2.580.042B cell and monocyte−2.21NS
    HLA-DQB1Major histocompatibility complex II-DQ beta 1Hs.409934−1.13−1.820.048B cell and monocyte−1.45NS
    HLA-DRB3Major histocompatibility complex II-DR beta 3Hs.308026−0.64−2.030.004B cell and monocyte−1.660.024
Cell death
    BIRC1Baculoviral IAP repeat-containing 1Hs.1913560.130.810.015Unknown (tissue)
    CARD10Caspase recruitment domain family, member 10Hs.579730.43−0.590.004Unknown (tissue)
    CD14CD14 moleculeHs.163867−0.56−1.26<0.001Monocyte−1.39<0.001
    DIABLODiablo homolog (Drosophila)Hs.1696110.27−1.810.012Unknown (tissue)
    LTBRLymphotoxin beta receptorHs.1116−0.23−1.300.049Leukocyte−1.650.013
Homeostasis—MT2AMetallothionein 2AHs.5343301.060.240.038Unknown (tissue)
Immune response and host defense
    CD5LCD5 molecule-likeHs.1340350.46−1.580.001Unknown (tissue)
    CSF3RColony-stimulating factor 3 receptorHs.524517−0.10−1.280.001Unknown (tissue)
    CXCL14CXC chemokine ligand 14Hs.4834440.66−0.070.003Unknown (tissue)
    FGF1Fibroblast growth factor 1Hs.4836350.03−0.680.004Unknown (tissue)
    FOSV-fos-FBJ murine osteosarcoma viral oncogene homologHs.25647−1.060.040.049Unknown (tissue)
    IGHG3Ig heavy constant gamma 3Hs.564623−0.44−2.200.003B cell−1.830.004
    IGHM-BP2Ig mu binding protein 2Hs.503048−0.53−2.630.005B cell−2.260.014
    IGL@Ig lambda locusHs.4495850.4−1.010.013B cell−0.640.050
    IGLJ3Ig lambda joining 3Hs.4496010.67−1.37<0.001B cell−1.00<0.001
    IL1RAPInterleukin 1 receptor accessory proteinHs.4786730.330.830.042Unknown (tissue)
    NF-KB2Nuclear factor of kappa light polypeptide gene enhancer in B cells 2Hs.73090−0.17−0.860.003Unknown (tissue)
    SOCS2Suppressor of cytokine signaling 2Hs.4855720.25−0.66<0.001T cell−0.470.003
    SOD2Superoxide dismutase 2, mitochondrialHs.487046−0.670.580.004Unknown (tissue)
    TAP1Ag peptide transporter 1Hs.352018−0.17−1.63<0.001B cell−1.26<0.001
    VAV2Vav 2 oncogene proteinHs.3699210.64−1.15<0.001Multiple cell types
Interferon-stimulated gene products
    CD58CD58 moleculeHs.34341−0.050.610.014Lymphocyte0.730.006
    G1P2IFN-α-inducible protein (clone IFI-15K)Hs.4584850.92−1.210.001Unknown (tissue)
    IFITM1IFN-induced transmembrane protein 1Hs.4584140.41−0.690.004Leukocyte−1.04<0.001
    IFNAR1IFN (alpha, beta and omega) receptor 1Hs.5294000.390.930.022Multiple cell types
    IFNGR1IFN-γ receptor 1Hs.520414−0.410.680.035T cell0.87<0.001
    NF-E2Nuclear factor (erythroid-derived 2), 45 kDaHs.75643−0.06−0.910.015Megakaryocyte
    PBEFPre-B-cell colony-enhancing factorHs.239138−0.650.440.008Unknown (tissue)
    PSMD8Proteasome 26S subunit, non-ATPase, 8Hs.78466−0.26−0.93<0.001Unknown
    PSME1Proteasome activator subunit 1Hs.75348−0.75−1.440.023Unknown
    RPS29Ribosomal protein S29Hs.5390.1−0.900.043Unknown (tissue)
    S100A11S100 calcium-binding protein A11Hs.1519730.25−0.690.008Leukocyte−1.040.001
    SF3B4Splicing factor 3b, subunit 4, 49 kDaHs.25797−0.35−1.130.01Unknown (tissue)
  • a Gene expression ratios are F-tested by ANOVA and are relative to means for healthy controls (n = 10). The numbers of SARS patients at crisis with an SO2 of ≥91% and those with an SO2 of <91% at the time were eight and five, respectively. Mean gene expression values were considered biologically significant at 0.58 (upregulated 1.5-fold) and −0.58 (downregulated 1.5-fold). Boldface indicates upregulated genes (≥1.5-fold). Boldface with underlining indicates downregulated genes (≥1.5-fold). NS, nonsignificant.

  • b Gene expression values were adjusted where possible relative to the major expressing cell type identified by Genatlas and reanalyzed by ANOVA as described in Results.