Table 3. A.
Top 53 genes with at least 2-fold higher expression in F9 Wt cells relative to F9 RARγ−/− cells at 24 h in the absence of RA. Fold change =WT/RARγ−/−.
| Affymetrix ID | Fold Changeab | Gene Symbol | Gene Title |
|---|---|---|---|
| 1431094_at | 43.31 | Rtl1 | Retrotransposon-like 1 |
| 1456250_x_at | 42.39 | Tgfbi | BB533460 RIKEN full-length enriched, 0 day neonate lung Mus musculus cDNA clone E030030E06 3′ similar to L19932 Mouse (beta ig-h3) mRNA, mRNA sequence. |
| 1417426_at | 38.65 | Prg1 | Proteoglycan 1, secretory granule |
| 1452183_a_at | 38.62 | Gtl2 | GTL2, imprinted maternally expressed untranslated mRNA |
| 1448123_s_at | 34.09 | H2-Ab1 | Histocompatibility 2, class II antigen A, beta 1 |
| 1422865_at | 31.5 | Spp1 | Secreted phosphoprotein 1 |
| 1439380_x_at | 29.61 | Gtl2 | BB093563 RIKEN full-length enriched, 12 days embryo, embryonic body between diaphragm region and neck Mus musculus cDNA clone 9430042P15 3′ similar to Y13832 Mus musculus mRNA for GT12 protein, mRNA sequence. |
| 1415871_at | 27.87 | H2-Ab1 | Histocompatibility 2, class II antigen A, beta 1 |
| 1448926_at | 27.49 | Hoxa5 | Homeo box A5 |
| 1441075_at | 25.77 | LOC329416 | nitric oxide synthase trafficker |
| 1418215_at | 25.05 | Mep1b | Meprin 1 beta |
| 1432159_a_at | 24.87 | Il2 | Interleukin 2 |
| 1452905_at | 24.52 | Gtl2 | GTL2, imprinted maternally expressed untranslated mRNA |
| 1455626_at | 23.25 | Hoxa9 | homeo box A9 |
| 1425109_at | 20.16 | Slc44a3 | Solute carrier family 44, member 3 |
| 1422864_at | 19.68 | Spp1 | Secreted phosphoprotein 1 |
| 1423294_at | 18.68 | Mest | Transcribed sequence with moderate similarity to protein sp:Q9UBF2 (H. sapiens) CPG2_HUMAN Coatomer gamma-2 subunit |
| 1435989_x_at | 18.51 | Krt2-8 | keratin complex 2, basic, gene 8 |
| 1427580_a_at | 18.48 | Rian | 15 days embryo head cDNA, RIKEN full-length enriched library, clone:D930050K13 product:unclassifiable, full insert sequence |
| 1426990_at | 18.39 | Cubn | cubilin (intrinsic factor-cobalamin receptor) |
| 1429273_at | 18.02 | Bmper | BMP-binding endothelial regulator |
| 1452400_a_at | 17.57 | Hoxa11s | homeo box A11, opposite strand transcript |
| 1419537_at | 17.39 | Ctsd | Cathepsin D |
| 1460550_at | 16.3 | BC051083 | cDNA sequence BC051083 |
| 1417787_at | 16.24 | Prnd | Prion protein dublet |
| 1451332_at | 16.03 | Zfp521 | Zinc finger protein 521; synonyms: Evi3, B930086A16Rik; isoform 2 is encoded by transcript variant 2; ecotropic viral integration site 3; Mus musculus zinc finger protein 521 (Zfp521), transcript variant 2, mRNA. |
| 1448804_at | 15.79 | Cyp11a1 | Cytochrome P450, family 11, subfamily a, polypeptide 1 |
| 1430637_at | 15.68 | 2210016H18Rik | Adult male stomach cDNA, RIKEN full-length enriched library, clone:2210016H18 product:hypothetical protein, full insert sequence |
| 1418713_at | 15.56 | Pcbd1 | Pterin 4 alpha carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (TCF1) 1 |
| 1431475_a_at | 15.11 | Hoxa10 | Homeo box A10 |
| 1458232_at | 15.1 | Dkk1 | dickkopf homolog 1 (Xenopus laevis) |
| 1434647_at | 14.92 | AU040377 | expressed sequence AU040377 |
| 1427433_s_at | 14.79 | 5730446D14Rik | RIKEN cDNA 5730446D14 gene |
| 1428781_at | 13.99 | 1110014F24Rik | RIKEN cDNA 1110014F24 gene |
| 1451687_a_at | 12.91 | Tcf2 | transcription factor 2 |
| 1451191_at | 12.51 | Crabp1 | Cellular retinoic acid binding protein I |
| 1418672_at | 12.46 | Lrrc1 | Leucine rich repeat containing 1 |
| 1418187_at | 12.46 | Ramp2 | Receptor (calcitonin) activity modifying protein 2 |
| 1429693_at | 12.41 | Dab2 | Disabled homolog 2 (Drosophila) |
| 1424393_s_at | 12.14 | Syt11 | Synaptotagmin XI |
| 1453782_at | 11.99 | 3021401C12Rik | RIKEN cDNA 0610012A05 gene |
| 1443696_s_at | 11.95 | Habp2 | hyaluronic acid binding protein 2 |
| 1433670_at | 11.65 | Emp2 | epithelial membrane protein 2 |
| 1450555_at | 11.56 | Il2 | Interleukin 2 |
| 1460722_at | 11.52 | Soat2 | Sterol O-acyltransferase 2 |
| 1449568_at | 11.4 | Klb | Klotho beta |
| 1440878_at | 11.38 | Runx1 | Runt related transcription factor 1 |
| 1420360_at | 11.05 | Dkk1 | Dickkopf homolog 1 (Xenopus laevis) |
| 1420565_at | 10.88 | Hoxa1 | Homeo box A1 |
| 1417828_at | 10.62 | Aqp8 | Aquaporin 8 |
| 1449088_at | 10.47 | Eef2 | Eukaryotic translation elongation factor 2 |
| 1456733_x_at | 10.36 | Serpinh1 | BB329489 RIKEN full-length enriched, 4 days neonate thymus Mus musculus cDNA clone B630008L19 3′, mRNA sequence. |
| 1417920_at | 10.22 | Creb1 | CAMP responsive element binding protein 1 |
| 1438558_x_at | 9.989 | Foxq1 | forkhead box Q1 |
a
Average from three experiments.
b
Some genes have multiple distinct probes on the GeneChip® resulting in different fold-changes from different probes.