TABLE 5

Complete list of all ProbeSets that displayed an AHR-independent response to TCDD

The right-hand column indicates the AHR-independent effect of TCDD. As shown in the other two columns, some of the genes that exhibited an AHR-independent effect of TCDD also displayed a TCDD-independent AHR-effect (left-hand column) or an AHR-TCDD interaction effect (middle column). 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
1433992_at Mm.40796 110380 Apical protein, Xenopus laevis-like 0.1 1.0* -0.6†
1438430_at Mm.87639 73389 3 1 High mobility group box transcription factor 1 0.3 0.6* -0.5†
1438359_at Mm.46323 75606 RIKEN cDNA 2010003K15 gene 0.3 0.5* -0.4†
1419267_at Mm.245998 18045 7 1 1 Nuclear transcription factor-Y β 0.0 -0.5† -0.4†
1448649_at Mm.1193 13809 9 4 Glutamyl aminopeptidase -0.5† -0.4† -0.3†
1425844_a_at Mm.240024 24018 5 RNA guanylyltransferase and 5′-phosphatase 0.1 0.3* -0.3†
1434329_s_at Mm.291826 68465 7 Adiponectin receptor 2 0.2 0.1 -0.2†
1416408_at Mm.356689 11430 7 1 2 Acyl-coenzyme A oxidase 1, palmitoyl 0.0 -0.2 -0.1†
1416119_at Mm.260618 22166 11 1 2 Thioredoxin 1 0.2* 0.1 0.1*
1451035_a_at Mm.30085 58810 5 1 Aldo-keto reductase family 1, member A4 (aldehyde reductase) 0.1* 0.3* 0.1*
1416979_at Mm.332855 66537 15 4 2 RIKEN cDNA 2510048O06 gene 0.1 0.3* 0.2*
1415882_at Mm.182912 66092 7 3 Growth hormone-inducible transmembrane protein -0.1 -0.3† 0.2*
1437745_at Mm.138792 320790 Chromodomain helicase DNA binding protein 7 0.0 -0.2 0.2*
1426449_a_at Mm.8211 18744 18 1 Prajal, RING-H2 motif-containing 0.1 0.6* 0.2*
1422130_at Mm.5142 18164 19 4 1 1 Neuronal pentraxin 1 (Nptx1) 0.3* 1.8* 0.4*
1458398_at Mm.87299 72268 RIKEN cDNA 1700027F06 gene 0.0 -0.4† 0.4*
1416543_at Mm.1025 18024 13 3 1 Nuclear factor, erythroid-derived 2, -like 2 0.1 2.0 0.4*
1428749_at Mm.93636 76881 Dmx-like 2 0.3* 0.5* 0.4*
1449125_at Mm.2312 66443 12 RIKEN cDNA 2600017J23 gene 1.5* 1.0* 0.4*
1436532_at Mm.26361 245038 2 1 Doublecortin and CaM kinase-like 3 0.6* 2.6* 0.6*
1421106_at Mm.22398 16449 12 4 1 2 Jagged 1 0.0 -0.6 0.6*
1443915_at Mm.41077 56456 11 Actin-like 6A -0.3† -0.6† 0.6*
1418260_at Mm.125874 26559 17 3 1 Hormonally up-regulated Neu-associated kinase -0.6† -0.7† 0.7*
1419426_s_at Mm.220853 18829 5 1 Chemokine (C-C motif) ligand 21b (serine) -0.8† -0.8† 0.7*
1421681_at Mm.262663 83961 2 1 Neuregulin 4 -0.9† -0.7† 0.7*
1424811_at Mm.347969 69049 3 1 Camello-like 5 2.3* 0.9* 0.7*
1450715_at Mm.15537 13077 1 1 P450, family 1, subfamily a, polypeptide 2 (Cyp1a2) 2.0* 1.4* 0.8*
1440739_at Mm.1402 22341 4 1 Vascular endothelial growth factor C -0.3 -0.8 0.9*
1422758_at Mm.212446 54371 16 2 1 Carbohydrate sulfotransferase 2 -0.4 -1.1 1.0*
1450044_at Mm.297906 14369 22 3 1 Frizzled homolog 7 (Drosophila melanogaster) 0.8 0.6 1.1*
1456500_at Mm.41291 69695 Anterior pharynx defective 1c homolog (Caenorhabditis elegans) -0.5 -1.5 1.1*
1426418_at Mm.87449 71093 20 5 2 Atonal homolog 8 (D. melanogaster) 1.4* 0.6 1.1*

  • P450, cytochrome P450.

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

  • ↵† Effects showing statistically significant down-regulation.