Table 2.
Named genes stimulated in 48 h TNF-α-treated chromaffin cells vs. control based on microarray analysis
| Gene | Ratio | Accession no. | GeneID |
|---|---|---|---|
| Signal transduction | |||
| Nuclear factor of κ light chain gene enhancer in B-cells inhibitor, α | 5.17 ± 0.38 | NM_010907 | 18035 |
| Tnf receptor associated factor 4 | 2.83 ± 0.08 | NM_009423 | 22032 |
| Guanine nucleotide binding protein (G protein), γ5 subunit | 2.66 ± 0.07 | NM_010318 | 14707 |
| Leucine-rich repeat kinase 2 | 2.66 ± 0.11 | NM_025730 | 66725 |
| Dual specificity phosphatase 10 | 2.57 ± 0.19 | NM_022019 | 63953 |
| Hypoxia inducible factor 1, α subunit | 2.49 ± 0.11 | NM_010431 | 15251 |
| Nucleotide-binding oligomerization domain containing 1 | 2.44 ± 0.06 | NM_172729 | 107607 |
| Forkhead box P4 | 2.44 ± 0.08 | NM_028767 | 74123 |
| CXXC finger 1 (PHD domain) | 2.36 ± 0.03 | NM_028868 | 74322 |
| Tumor necrosis factor, α-induced protein 3 | 2.33 ± 0.17 | NM_009397 | 21929 |
| PRP6 pre-mRNA splicing factor 6 homolog (yeast) | 2.25 ± 0.12 | NM_133701 | 68879 |
| Homeo box, msh-like 1 | 2.25 ± 0.12 | NM_010835 | 17701 |
| Bone morphogenetic protein receptor, type 1A | 2.14 ± 0.04 | BC042611 | 12166 |
| Zinc finger protein 239 (Zfp239), transcript variant 2 | 2.05 ± 0.04 | NM_008616 | 22685 |
| Immune response | |||
| Histocompatibility 2, Q region locus 10 | 3.33 ± 0.07 | BC011215 | 15007 |
| Histocompatibility 2, Q region locus 2 | 3.23 ± 0.18 | NM_010392 | 15013 |
| Histocompatibility 2, D region locus 1 | 3.10 ± 0.10 | NM_010380 | 14964 |
| Programmed cell death 1 ligand 2 | 2.38 ± 0.06 | NM_021396 | 58205 |
| Defensin β 7 | 2.21 ± 0.07 | NM_139220 | 246080 |
| Gene model 1960 (NCBI) | 2.08 ± 0.04 | NM_203320 | 330122 |
| Metabolism | |||
| Hexosaminidase B | 3.11 ± 0.02 | NM_010422 | 15212 |
| Ubiquitin specific peptidase 53 | 2.96 ± 0.05 | NM_133857 | 99526 |
| Phenylethanolamine-N-methyltransferase | 2.90 ± 0.27 | NM_008890 | 18948 |
| Cathepsin K | 2.74 ± 0.14 | NM_007802 | 13038 |
| Acetylcholinesterase | 2.66 ± 0.07 | NM_009599 | 11423 |
| Phosphoenolpyruvate carboxykinase 2 (mitochondrial) | 2.62 ± 0.13 | NM_028994 | 74551 |
| Enolase 1, α-nonneuron | 2.60 ± 0.17 | NM_023119 | 13806 |
| RAD52 homolog (S. cerevisiae) | 2.55 ± 0.12 | NM_011236 | 19365 |
| Proprotein convertase subtilisin/kexin type 7 | 2.52 ± 0.09 | NM_008794 | 18554 |
| F-box protein 17 | 2.40 ± 0.17 | NM_015796 | 50760 |
| Procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), α-polypeptide III | 2.38 ± 0.12 | NM_177161 | 320452 |
| arginase type II | 2.36 ± 0.08 | NM_009705 | 11847 |
| Protein-l-isoaspartate (d-aspartate) O-methyltransferase 1 | 2.30 ± 0.02 | NM_008786 | 18537 |
| Glycosyltransferase 25 domain containing 2 | 2.24 ± 0.01 | NM_177756 | 269132 |
| Glutamine fructose-6-phosphate transaminase 2 | 2.23 ± 0.12 | NM_013529 | 14584 |
| Traffic/secretion | |||
| Secretogranin II | 3.07 ± 0.13 | NM_009129 | 20254 |
| Hermansky-Pudlak syndrome 4 homolog (human) | 2.82 ± 0.12 | BC004668 | 192232 |
| Coatomer protein complex, subunit zeta 2 | 2.76 ± 0.18 | NM_019877 | 56358 |
| Uncoupling protein 2 (mitochondrial, proton carrier) | 2.57 ± 0.12 | NM_011671 | 22228 |
| Sorting nexin 2 | 2.40 ± 0.13 | NM_026386 | 67804 |
| Synuclein, α-interacting protein (synphilin) | 2.28 ± 0.12 | NM_026408 | 67847 |
| Proliferation/differentiation | |||
| Reelin | 2.93 ± 0.22 | NM_011261 | 19699 |
| Fibroblast growth factor 2 | 2.72 ± 0.09 | NM_008006 | 14173 |
| Myosin IB | 2.22 ± 0.09 | NM_010863 | 17912 |
| Vascular endothelial growth factor A, transcript variant 2 | 2.18 ± 0.05 | NM_009505 | 22339 |
| Unknown function | |||
| Moesin | 2.58 ± 0.05 | NM_010833 | 17698 |
| Zinc finger protein 291 | 2.55 ± 0.05 | NM_001081341 | 244891 |
| IBR domain containing 3 | 2.53 ± 0.04 | XM_991982 | 75234 |
| Hydrocephalus inducing | 2.47 ± 0.12 | NM_172916 | 244653 |
| Histidine triad nucleotide binding protein 2 | 2.42 ± 0.07 | NM_026871 | 68917 |
| Similar to l-lactate dehydrogenase A chain (LDH muscle subunit) | 2.42 ± 0.14 | XR_002509 | 385319 |
| Tripartite motif-containing 58 | 2.40 ± 0.12 | NM_001039047 | 216781 |
| Killer cell lectin-like receptor subfamily K, member 1, transcript variant 2 | 2.39 ± 0.05 | NM_001083322 | 27007 |
| Fibronectin type III domain containing 4 | 2.38 ± 0.22 | NM_022424 | 64339 |
| Hippocalcin-like 4 | 2.30 ± 0.14 | NM_174998 | 170638 |
| Spermine binding protein-like | 2.29 ± 0.16 | NM_001077421 | 638345 |
| Similar to ribosomal protein L18a | 2.26 ± 0.03 | XR_003475 | 625760 |
| Spermatogenic Zip 1 | 2.25 ± 0.09 | NM_030237 | 79401 |
| CUB and Sushi multiple domains 1 | 2.23 ± 0.10 | NM_053171 | 94109 |
| U1 small nuclear ribonucleoprotein polypeptide A | 2.19 ± 0.08 | NM_009224 | 20637 |
| Similar to Kruppel-like factor 5 | 2.13 ± 0.05 | XR_002503 | 546990 |
| Similar to solute carrier family 25, member A6 | 2.13 ± 0.02 | XR_003714 | 672115 |
| Seizure related 6 homolog like | 2.11 ± 0.05 | NM_019982 | 56747 |
| SET binding factor 1 | 2.09 ± 0.02 | NM_001081030 | 77980 |
The GenBank accession no. and the Gene cluster (GeneID) for each gene are indicated. The ratios ± sem were determined from three different experiments. The highlighted genes (in bold) correspond to TNF-α-stimulated genes in both 6- and 48-h microarray.