Table 2.
Up-regulated and Down-regulated TGFβ-Responsive Genes in RIE and RIE-Ras Cells.
| Name | Accession Number | log2(N) | FDR | Function |
| (A) RIE-Ras: up-regulated | ||||
| Unknown | AI599739 | 2.86 | .000 | Unknown |
| GADD45β* | CA509894 | 2.64 | .000 | Cdc2/cyclin B1 kinase inhibitor |
| Unknown | BE117708 | 2.48 | .000 | Unknown |
| Bile acid CoA ligase | NM_024143 | 2.39 | .001 | Conjugates bile acid with amino acid |
| Endothelial differentiation, sphingolipid G-protein-coupled receptor, 3 | BF281109 | 2.26 | .000 | G-protein-coupled receptor with putative role in angiogenesis |
| Adenomatosis polyposis coli 2 | CB547568 | 2.24 | .000 | Homolog of tumor-suppressor APC, with putative roles in transcription and signal transduction |
| C1q-related factor | AI716054 | 2.07 | .000 | Unknown |
| Sciellin | AI717110 | 2.05 | .002 | Structural protein |
| Lymphocyte antigen 94 | NM_057199 | 2.03 | .017 | Lysis receptor of NK cells |
| Thyroglobulin* | NM_030988 | 1.95 | .000 | Catalyzes formation of thyroid hormone |
| Calcyon | NM_138915 | 1.9 | .000 | Membrane protein that interacts with dopamine receptor |
| Thrombospondin* | BE127095 | 1.87 | .000 | Extracellular matrix protein with putative role in angiogenesis |
| Fragile X mental retardation 2* | CB546478 | 1.85 | .000 | Putative transcription factor |
| Erbb2 interacting protein | CB546222 | 1.83 | .000 | Inhibit EGF signaling by preventing the activation of the Raf-1 kinase by Ras |
| Down syndrome cell adhesion molecule | NM_133587 | 1.72 | .000 | Ig superfamily cell-adhesion molecule thought to function in neuronal development |
| Unknown (serine/threonine kinase domain) | AW527300 | 1.7 | .000 | Unknown |
| Isopeptidase T-3 | AW521619 | 1.69 | .000 | Ubiquitin-specific protease |
| Jun B proto-oncogene* | NM_021836 | 1.69 | .000 | AP-1 family transcription factor |
| Basic helix-loop-helix domain containing, class B2* | NM_053328 | 1.68 | .000 | Transcription factor |
| MAD homolog 7* | NM_030858 | 1.68 | .000 | Inhibits Smad3/Smad4 signaling |
| FLJ00179 protein | BG673684 | 1.66 | .000 | Unknown |
| Myosin binding protein H | NM_031813 | 1.66 | .014 | Structural protein involved in myosin binding |
| Hypothetical C2H2 zinc finger protein | CB546651 | 1.65 | .000 | Putative transcription factor |
| Plasminogen activator inhibitor type 11 | NM_012620 | 1.62 | .000 | Major inhibitor of plasminogen activators |
| Gb3 synthase | NM_022240 | 1.62 | .004 | Catalyzes glycosphingolipid synthesis |
| Receptor type protein tyrosine phosphatase psi | U66566.1 | 1.6 | .000 | Transmembrane receptor-type protein tyrosine phosphatase with putative role in neuronal development |
| Neuraminidase 1 | NM_031522 | 1.59 | .000 | Removes sialic acids from glycoproteins and gangliosides |
| Preproprolactin-releasing peptide | NM_022222 | 1.56 | .000 | Stimulates stress hormone secretion by either direct pituitary or indirect hypothalamic actions |
| Leukemia/lymphoma-related factor | CB546785 | 1.54 | .000 | Zing finger transcription factor |
| Tenascin XB | CB544736 | 1.54 | .000 | Extracellular matrix glycoprotein |
| Connective tissue growth factor* | NM_022266 | 1.53 | .000 | Matricellular protein that plays an essential role in the formation of blood vessels, bone, and connective tissue |
| Unknown function | CB544526 | 1.52 | .000 | Unknown |
| Unknown function | AI409493 | 1.47 | .000 | Unknown |
| Ski-related novel protein N* | CB548407 | 1.46 | .000 | Smad 2/Smad 3 repressor |
| Hypothetical intermediate filament proteins containing protein | BM389145 | 1.45 | .002 | Putative structural protein in cytoskeleton or nuclear envelope |
| GADD45γ* | BF419904 | 1.45 | .000 | Cdc2/cyclin B1 kinase inhibitor |
| Olfactory protein | M64376.1 | 1.45 | .004 | Seven transmembrane domain protease |
| Eferin | CB545653 | 1.45 | .032 | ADP-ribosylation factor binding protein of unknown function |
| 45-kDa secretory protein | AJ132352.1 | 1.44 | .000 | Lipid binding protein of unknown function |
| Activator of G-protein signaling 3 | NM_144745 | 1.43 | .001 | Guanine nucleotide dissociation inhibitor that contains G protein regulatory motifs in its C-terminal domain |
| Vascular endothelial growth factor* | NM_031836 | 1.4 | .000 | Vascular growth factor |
| (B) RIE-Ras: down-regulated | ||||
| S100A6 | NM_053485 | -2.38 | .000 | Calcium binding protein of unknown function |
| Cadherin 15 | CB544279 | -2.15 | .020 | Cell-cell adhesion molecule |
| Stomatin-like 1 | CB544301 | -1.39 | .049 | Putative sterol-binding protein |
| (C) RIE: up-regulated | ||||
| MAD homolog 7* | NM_030858 | 2.16 | .000 | Inhibits Smad3/Smad4 signaling |
| GADD45β* | CA509894 | 2.03 | .000 | Cdc2/cyclin B1 kinase inhibitor |
| Basic helix-loop-helix domain containing, class B2* | NM_053328 | 1.87 | .000 | Transcription factor |
| Unknown | CB545096 | 1.77 | .002 | Unknown |
| Vascular endothelial growth factor* | NM_031836 | 1.64 | .000 | Vascular growth factor |
| Jun B proto-oncogene* | NM_021836 | 1.55 | .004 | AP-1 family transcription factor |
| Hairy and enhancer of split 1 | NM_024360 | 1.4 | .000 | Notch pathway homeobox transcription factor |
| Unknown | CB546780 | 1.4 | .000 | Zinc finger domain, unknown function |
| (D) RIE: Down-regulated | ||||
| Nuclear distribution gene C homolog | NM_017271 | -2.04 | .000 | Regulates movement of nuclei after mitosis |
| Ribosomal protein L27 | NM_022514 | -1.9 | .001 | Ribosomal protein |
| Ribosomal protein S29 | NM_012876 | -1.83 | .004 | Ribosomal protein |
| Glutathione S-transferase P subunit | NM_138974 | -1.7 | .002 | Component of glutathione S-transferase |
| Helicase DDX32 | CB548436 | -1.59 | .006 | DEAH family helicase |
| Hypothetical protein FLJ12800 | BE106894 | -1.56 | .009 | Unknown |
| Fragile X mental retardation 2* | CB546478 | -1.5 | .017 | Putative transcription factor |
| Unknown | BF390720 | -1.45 | .000 | Putative component of Golgi complex |
*
Previously identified as TGFβ-regulated.