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Table 3 Genes involved in virus response, inflammatory response and antigen presentation

From: Venezuelan equine encephalitis virus infection causes modulation of inflammatory and immune response genes in mouse brain

UniGene ID Functional Grouping (Gene) Upregulation (fold change) (Hours post infection)
   24 48 72 96
  Virus Response and Inflammation     
Mm.136224 Interferon induced with helicase C domain 1 (Ifih1) NE 3.59/- 5.21 ± 1.05 4.18 ± 0.31
Mm.3233 Interferon regulatory factor 7 (Irf7) NE NE 4.31 ± 1.51 2.01 ± 0.08
Mm.271275 Interferon, alpha-inducible protein 27 (Ifi27) NE NE 4.79 ± 0.67 6.62 ± 0.32
Mm.233471 2'-5' oligoadenylate synthetase 1B (Oas1b) NE 1.89/- 5.12 ± 0.04 2.32 ± 0.08
Mm.867 Chemokine (C-C motif) ligand 12 (Ccl12) 5.03 ± 1.86 4.63/- 7.87 ± 0.54 4.70 ± 0.36
Mm.131723 Chemokine (C-X-C motif) ligand 11 (Cxcl11) NE 8.76/- 17.02 ± 5.19 13.68 ± 5.51
Mm.877 Chemokine (C-X-C motif) ligand 10 (Cxcl10) NE 7.49/- 15.45 ± 0.67 8.69 ± 0.37
Mm.284248 Chemokine (C-C motif) ligand 5 (Ccl5) NE NE 4.27 ± 1.27 3.56 ± 0.66
Mm.1282 Chemokine (C-C motif) ligand 3 (Ccl3) NE NE 2.26/1.83 2.05 ± 0.21
Mm.10116 Chemokine (C-X-C motif) ligand 13 (Cxcl13) NE NE 2.06 ± 0.41 1.73/-
Mm.766 Chemokine (C-X-C motif) ligand 9 (Cxcl9) NE NE 3.99 ± 1.62 1.85 ± 0.14
Mm.22673 Fc receptor, IgE, high affinity I, gamma polypeptide (Fcer1g) NE NE 3.66 ± 0.29 3.38 ± 0.63
Mm.5419 Interleukin 17 (Il17) NE NE NE 2.06 ± 0.33
Mm.2326 Macrophage migration inhibitory factor (Mif) NE 1.08 ± 0.17 2.25 ± 0.53 2.06 ± 0.07
Mm.24163 PYD and CARD domain containing (Pycard) NE NE 1.81 ± 0.165 1.52 ± 0.31
Mm.200608 Clusterin (Clu) NE 1.74 ± 0.13 4.03 ± 1.54 2.45 ± 0.37
Mm.283714 Sialophorin (Spn) 1.93 ± 0.14 2.50 ± 0.19 2.87 ± 1.63 2.25 ± 0.24
  Antigen Presentation     
Mm.209294 Adaptor-related protein complex 3, delta 1 subunit (Ap3d1) 1.33 ± 0.83 NE 2.17 ± 0.35 1.69 ± 0.01
Mm.163 Beta-2 microglobulin (B2m) NE NE 10.39 ± 0.32 6.07 ± 0.25
Mm.1894 CD1d1 antigen (Cd1d1) NE NE NE 1.56 ± 0.01
Mm.22673 Fc receptor, IgE, high affinity I, gamma polypeptide (Fcer1g) NE NE 3.66 ± 0.29 3.38 ± 0.63
Mm.33263 Histocompatibility 2, D region locus 1 (H2-D1) NE NE 4.88 ± 0.12 9.04 ± 1.15
Mm.387141 Histocompatibility 2, D region locus 4 (H2-D4) NE NE 8.92 ± 7.66 9.42 ± 1.34
Mm.35016 Histocompatibility 2, T region locus 23 (H2-T23) NE NE 4.72 ± 0.89 3.15 ± 0.83
Mm.296901 Histocompatibility 2, Q region locus 7 (H2-Q7) 4.55 ± 2.49 4.58/- 10.22 ± 4.92 9.50 ± 0.76
Mm.296901 Histocompatibility 2, Q region locus 8 (H2-Q8) NE NE 4.45 ± 0.48 NE
  1. Genes that are involved in the virus response and immune response were upregulated at 72 and 96 hr post infection concomitant with the virus appearance in the brain. Several inflammatory response and antigen presentation genes were upregulated and their expression increased with the progression of the disease. Values are fold changes in the gene expression in test samples over saline controls. Values are expressed as mean ± SEM. NE indicates not expressed or expression was lower than 1 fold (and/or did not meet the cut off criteria of 99% confidence interval, 150 minimum intensity or 30 μm spot size) NE indicates not expressed and '-' indicates not expressed in biological replicates.
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