TABLE 4

AHR-dependent effects of TCDD

The 25 ProbeSets that are most up-regulated and the 24 most down-regulated are shown. Both transient (UniGene) and stable(LocusLink) gene identifiers are given. ProbeSets that carry no LocusLink could be mapped to a UniGene cluster, but that cluster did not correspond to a RefSeq gene. ProbeSets that carry no name and no UniGene cluster identifier could not be mapped to any cluster of transcribed sequences and may represent repetitive or nonspecific sequences. In some cases, the array contains multiple ProbeSets that map to the same gene; thus, the same gene name can appear at multiple places in the table. In cases in which genomic sequence is available, the number of AHRE-I and AHRE-II elements found in the region -5000 to +1000 bp relative to the TSS are given; see Materials and Methods for the sequence of each element. “M” values indicate the magnitude in log2-space of each contrast. For example, an effect of -3 refers to an 8-fold reduction in expression, whereas an effect of +2 refers to a 4-fold increase in mRNA levels. The abbreviated names of genes that are discussed in the text are shown in boldface type in parentheses. A full list of all responsive genes is available in Supplemental Table S2.

ProbeSet UniGene Cluster LocusLink AHRE-I AHRE-II Cluster Name M
Core Extended Full AHR AHR-TCDD TCDD
Up-regulated
    1416612_at Mm.214016 13078 16 3 1 P450, family 1, subfamily b, polypeptide 1 (Cyp1b1) 0.1 7.9* 0.2
    1422217_a_at Mm.14089 13076 16 8 5 1 P450, family 1, subfamily a, polypeptide 1 (Cyp1a1) -0.5 7.7* 1.4
    1449525_at Mm.2900 14262 5 1 2 Flavin-containing monooxygenase 3 (Fmo3) -0.3 6.3* -0.4
    1452913_at Mm.273087 66425 Purkinje cell protein 4-like 1 (Pcp4l1) 0.2 6.2* 0.1
    1434877_at Mm.5142 18164 19 4 1 1 Neuronal pentraxin 1 (Nptx1) 0.1 6.2* 0.1
    1416613_at Mm.214016 13078 16 3 1 3 P450, family 1, subfamily b, polypeptide 1 (Cyp1b1) 0.1 6.0* 0.1
    1452161_at Mm.246398 99929 16 1 2 TCDD-inducible poly(ADP-ribose) polymerase 0.0 5.5* 1.0
    1452160_at Mm.246398 99929 16 1 2 TCDD-inducible poly(ADP-ribose) polymerase 0.0 5.3* 0.8
    1426721_s_at Mm.246398 99929 16 1 2 TCDD-inducible poly(ADP-ribose) polymerase 0.1 5.3* 0.5
    1419518_at Mm.32884 53857 7 3 1 5 Tubulin, α8 (Tuba8) -2.6† 5.0* -0.1
    1419149_at Mm.250422 18787 11 3 Serine (or cysteine) proteinase inhibitor, clade E, member 1 (Serpine1) 0.3 4.9* 0.4
    1435459_at Mm.10929 55990 7 1 Flavin-containing monooxygenase 2 (Fmo2) -0.7 4.9* -0.3
    1446771_at Mm.32884 53857 7 3 1 5 Tubulin, α8 (Tuba8) -0.8 4.8* -0.2
    1424167_a_at Mm.18939 29858 11 4 2 Phosphomannomutase 1 -0.4 4.6* -0.3
    1423627_at Mm.252 18104 8 NAD(P)H dehydrogenase, quinone 1 -0.8 4.5* -0.1
    1452026_a_at Mm.151951 66350 10 1 1 Phospholipase A2, group XIIA -1.4 4.4* -0.7
    1430780_a_at Mm.18939 29858 11 4 2 Phosphomannomutase 1 -0.1 4.4* 0.0
    1449273_at Mm.154358 76884 9 2 Hypothetical A830091E24 0.1 4.2* 0.2
    1448147_at Mm.281356 29820 10 1 2 Tumor necrosis factor receptor superfamily, member 19 0.2 4.2* 0.1
    1431788_at Mm.47052 75497 11 2 1 RIKEN cDNA 1700008G05 gene 0.0 4.1* 0.1
    1453435_a_at Mm.10929 55990 7 1 Flavin-containing monooxygenase 2 (Fmo2) -0.4 3.9* 0.1
    1428347_at Mm.154358 76884 9 2 Hypothetical A830091E24 0.0 3.8* 0.3
    1427912_at Mm.4512 109857 20 5 1 2 Carbonyl reductase 3 0.0 3.6* 0.1
    1427385_s_at Mm.253564 20904 6 2 2 Actinin, α1 0.1 3.5* 0.1
    1455267_at Mm.89989 26381 17 2 Estrogen-receptor-related γ (Esrrg) 0.1 3.5* 0.0
Down-regulated
    1415944_at Mm.2580 20969 10 1 Syndecan 1 -1.5† -1.2† 0.0
    1423267_s_at Mm.16234 16402 9 Integrin α5 (fibronectin receptor α) -0.1 -1.2† 0.4
    1460197_a_at Mm.31403 117167 2 1 Tumor necrosis factor, α-induced protein 9 0.3 -1.2† 0.1
    1459141_at Mm.175096 73625 RIKEN cDNA 1810008I18 gene -0.5 -1.3† -0.5
    1456609_at Mm.41603 66259 RIKEN cDNA 1810006K23 gene -0.4 -1.3† 0.2
    1437929_at Mm.79993 240025 22 2 2 Dapper homolog 2, antagonist of β-catenin (Xenopus laevis) -0.5 -1.3† 0.5
    1428936_at Mm.166944 67972 RIKEN cDNA 2810442I22 gene -0.9† -1.3† 0.2
    1425033_at Mm.24030 218103 4 Solute carrier family 17 (sodium phosphate), member 2 0.4 -1.3† 0.0
    1427963_s_at Mm.347374 103142 3 1 Retinol dehydrogenase 9 0.6 -1.4† -0.4
    1451753_at Mm.2251 18845 9 2 1 Plexin A2 -0.1 -1.4† 0.1
    1434153_at Mm.251716 230126 Src homology 2 domain-containing transforming protein B -0.5 -1.4† 0.5
    1425829_a_at Mm.31403 117167 2 1 Tumor necrosis factor, α-induced protein 9 0.9 -1.4† 0.2
    1448158_at Mm.2580 20969 10 1 Syndecan 1 -1.1† -1.5† 0.1
    1456500_at Mm.41291 69695 Anterior pharynx defective 1c homolog (Caenorhabditis elegans) -0.5 -1.5† 1.1*
    1417982_at Mm.27136 72999 12 2 Insulin-induced gene 2 0.7 -1.5† 0.5
    1422473_at Mm.20181 18578 4 Phosphodiesterase 4B, cAMP-specific -1.2† -1.6† -0.2
    1434674_at Mm.342337 17101 1 1 Lysosomal-trafficking regulator 0.1 -1.7† 0.4
    1428739_at Mm.79127 68919 RIKEN cDNA 2310040A07 gene -0.1 -1.8† 0.4
    1434592_at Mm.186778 52015 Solute carrier family 16 (monocarboxylic acid transporters), member 10 0.3 -1.9† 0.3
    1416258_at Mm.2661 21877 13 2 1 1 Thymidine kinase 1 -0.7† -2.1† 0.1
    1452893_s_at Mm0.79127 68919 RIKEN cDNA 2310040A07 gene -0.3 -2.2† 0.4
    1439617_s_at Mm.266867 18534 7 2 1 Phosphoenolpyruvate carboxykinase 1, cytosolic (Pck1) -0.9 -2.4† 0.2
    1448080_at Mm.240566 108961 RIKEN cDNA 4432406C08 gene 0.9 -3.5† 0.3
    1438617_at Mm.211704 331535 1 Serine (or cysteine) proteinase inhibitor, clade A (α — 1 antiproteinase, antitrypsin), member 7 (Serpina7) -0.5 -4.3† -0.4

  • P450, cytochrome P450.

  • ↵* Effects showing statistically significant up-regulation (p < 10-3 in the nested F test).

  • ↵† Effects showing statistically significant down-regulation.