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Table 2 ToxArray™ data normalized without EC: Overall adjusted p after exposure to PB and fold changes (relative to Control) and pairwise p-values at each dose for each gene (probe) that showed differential expression. Bold text indicates genes identified as differential overall (p < 0.05) in the EC-normalized analysis (Table 1).

From: Novel design and controls for focused DNA microarrays: applications in quality assurance/control and normalization for the Health Canada ToxArray™

    Control versus 100 mg/kg Control versus 10 mg/kg Control versus 1 mg/kg James-Stein F-Test
Gene (probe) Name Full name GenBank Fold change Pairwise P-value Fold change Pairwise P-value Fold change Pairwise P-value Overall P-value
Cyp2b9* cytochrome P450, 2b9, phenobarbitol inducible, type a, NM_010000 8.55 0.0000 3.56 0.0000 1.15 0.8412 0.0000
Cyp2b10 Cytochrome P450, 2b10, phenobarbitol inducible, type b NM_009998 3.93 0.0000 2.92 0.0000 -1.08 0.8501 0.0000
Gdf15 growth differentiation factor 15 NM_011819 2.57 0.0000 1.26 0.6381 1.11 0.8311 0.0002
Gsta2 Glutathione S-transferase, alpha 2 (Yc2) NM_008182 2.26 0.0353 1.08 0.9165 -1.22 0.7337 0.0160
Gstm3 glutathione S- transferase mu 3 (EC 2.5.1.18) J03953 2.21 0.0000 -1.01 0.9793 1.31 0.4323 0.0002
Gadd45b growth arrest and DNA-damage-inducible 45 beta NM_008655 1.93 0.0000 1.04 0.8931 -1.12 0.6016 0.0000
Lpin1 lipin 1, alias fatty liver dystrophy NM_015763 -1.66 0.0037 -1.02 0.9469 1.03 0.9303 0.0051
Gadd45a growth arrest and DNA damage inducible NM_007836 1.62 0.0024 1.25 0.4642 -1.22 0.4506 0.0000
Idi1 isopentenyl-diphosphate delta isomerase NM_145360 -1.57 0.0131 -1.44 0.2098 -1.04 0.9206 0.0160
Por NADPH cytochrome p450 oxidoreductase NM_008898 1.55 0.0489 1.34 0.4157 1.07 0.8477 0.0341
Rbp1 retinol binding protein 1, cellular NM_011254 1.49 0.0029 1.04 0.8850 1.14 0.5150 0.0094
AhR rat Ah receptor NM_013464 1.42 0.0676 1.06 0.8713 -1.07 0.8304 0.0436
Dusp6 dual specificity phosphatase 6 NM_026268 1.41 0.0486 1.29 0.3460 -1.04 0.9018 0.0107
Gsta4 Glutathione S-transferase, alpha 4 NM_010357 1.41 0.0037 -1.00 0.9961 -1.09 0.6389 0.0006
gstm2 glutathione S-transferase, mu 2 NM_008183 1.40 0.0131 1.05 0.8594 1.07 0.7447 0.0329
Ephx1 epoxide hydrolase 1, microsomal; Eph1, Eph-1, AI195553 NM_010145 1.39 0.0004 1.08 0.6873 1.11 0.4882 0.0021
Chk choline kinase NM_013490 -1.39 0.0214 -1.17 0.5202 1.03 0.9165 0.0223
Ugt1a6 UDP glycosyltransferase 1 family, polypeptide A6 XM_135531 1.38 0.0019 1.22 0.2979 1.13 0.4624 0.0063
Lbp Lipopolysaccharide binding protein NM_008489 1.38 0.0254 1.12 0.6547 1.35 0.1677 0.0436
Adcy6 adenylate cyclase 6 NM_007405 -1.34 0.0037 -1.04 0.8511 1.01 0.9774 0.0068
Pitpn phosphatidylinositol transfer protein NM_008850 1.23 0.0000 1.07 0.4947 1.08 0.4311 0.0004
Olfr447 olfactory receptor 447 NM_146988 -1.20 0.6328 -1.19 0.4947 1.03 0.9112 0.0436
Anpep aminopeptidase N NM_008486 1.20 0.3851 -1.14 0.5202 -1.02 0.9253 0.0223
cd8b CD8 antigen, beta chain NM_009858 -1.16 0.0158 -1.07 0.5160 -1.11 0.2616 0.0436
Cyp2a4 Cytochrome P450, 2a4 (phenobarbitol inducer NM_009997 1.14 0.3851 -1.07 0.6474 -1.09 0.4999 0.0045
Mmp9: matrix metalloproteinase 9 NM_013599 -1.14 0.0735 -1.15 0.1425 -1.16 0.1632 0.0305
Egfr epidermal growth factor receptor NM_007912 -1.13 0.9847 1.07 0.8206 1.30 0.1971 0.0192
Hao1 hydroxyacid oxidase NM_010403 -1.12 0.9867 1.24 0.5202 1.42 0.1991 0.0233
Gpam glycerol-3-phosphate acyltransferase, mitochondrial NM_008149 -1.10 0.9847 1.11 0.5202 1.20 0.1971 0.0063
Ape2 AP endonuclease 2 NM_029943 -1.09 0.9867 -1.18 0.5833 -1.43 0.1677 0.0395
Acadvl acyl-Coenzyme A dehydrogenase, very long chain NM_017366 -1.07 0.9867 1.10 0.5887 1.18 0.2294 0.0436
SCADfamilyprotein mRNA for SCAD family protein AJ296079 -1.05 0.9890 1.02 0.9388 1.26 0.1971 0.0395
PERP PERP, TP53 apoptosis effector NM_022032 -1.04 0.9890 1.06 0.7161 1.15 0.2892 0.0170
Acaa2 acetyl-Coenzyme A acyltransferase 2, mitochondrial NM_177470 -1.02 0.9984 1.11 0.5202 1.24 0.1632 0.0094
Vegfb(2) vascular endothelial growth factor B NM_011697 -1.02 0.9984 -1.25 0.2731 -1.31 0.1677 0.0101
Fads2 fatty acid desaturase 2 NM_019699 -1.02 0.9984 1.22 0.3816 1.29 0.1902 0.0395
Nme2 expressed in non-metastatic cells 2, protein NM_008705 1.01 0.9984 -1.21 0.4947 -1.14 0.5423 0.0436
Pxmp3 peroxisomal membrane protein 3 NM_008994 -1.01 0.9984 1.11 0.3446 1.14 0.1677 0.0242
Unc5h3 Unc5c:unc-5 homolog C (C. elegans), rostral cerebellar malform. NM_009472 -1.00 0.9984 -1.08 0.6381 1.03 0.8466 0.0475
  1. * Bolded text indicates genes also identified as differential in the EC-normalized analysis (Table 1)