Table 4.
Predicted Immune Related Genes Among Not Well Characterized Genes
| Acc. no. | Homologs | TF sites in promoter | Model score | SAGE data after activation of NF-κB |
| AB007869 | Homologs in mice | AP1, STAT, NF-κB | 0.850 | Th1:PMA(1:9, 1.1e-2)(1); Th2:PMA(1:3, 3.1e-1)(1); HMVEC:VEGF (19:34, 2.8e-2)(2) |
| AF055016a | Homologs in mice, and fly | AP1, STAT, NF-κB | 0.850 | Th1:PMA(0:6, 1.6e-2)(1); Th2:PMA(0:6, 1.6e-2)(1); HMVEC:VEGF (0:51, < e-10)(2) |
| AJ245599 | Homologs mice, and fly (four-jointed) | AP1, IK1, NF-κB | 0.833 | HMVEC:VEGF(0:34, < e-10)(2) |
| AK022822a | Homologs in fly, and yeast | AP1, IK1, NF-κB | 0.833 | Th1:PMA(0:54, < e-10)(1) Th2:PMA(0:120, < e-10)(1); HMVEC:VEGF (4930:6471)(2) |
| AK023143 | Homolog fly | AP1, IK1, NF-κB | 0.833 | Th1:PMA(0:3, 1.3e-1)(1); Th2:PMA(0:6, 1.6e-2)(1); HMVEC:VEGF(19:34, 2.8e-2)(2) |
| AK025876 | Homologs in mice, fly, worm, yeast (sir2) | AP1, IK1, NF-κB | 0.833 | Mo:LPS(0:5, 3.1e-2)(4); Mo:M-CSF(0:7, 7.8e-3)(3); Mo:GM-CSF(0:7, 7.8e-3)(3); Th1:PMA(0:3, 1.3e-1)(1); Th2:PMA(0:9, 1.9e-3)(1); HMVEC:VEGF(19:103, < e-10)(2) |
| NM_007229 | Homologs in mice, fly, and yeast | AP1, STAT, NF-κB | 0.850 | Mo:M-CSF(1:4, 1.9e-1)(3) |
| AK000731b | Homolog in mice, and fly | AP1, STAT, NF-κB | 0.586 | Mo:LPS(0:3, 1.3e-1)(4); HMVEC:VEGF(19:34, 2.8e-2)(2) |
| NM-016185b | Homolog in mice | AP1, IK1, NF-κB | 0.796 | Th1:PMA(0:6, 1.6e-2)(1); Th2:PMA(0:6, 1.6e-2)(1); Mo:GM-CSF+TNFα+IL4(0:16, 1.5e-5)(5) |
NF-κB binding site conserved in Drosophila, otherwise conserved in mouse.
Predictions by Model 2, the rest are predictions by model 1.
The second column indicates whether homologs of the genes are found in other model organisms. The third column shows the transcription factors that may regulate the gene. The fourth column gives score (π[x]) for the promoter in the LRA model. The last column indicates the SAGE data. Among the data on monocytes (Mo), results are number of tags per 57,000 tags. With T cells (Th1 and Th2), they are tags per 93,000 tags. For HMVEC, data are presented as tags per million tags. The SAGE data are presented as cell-line: NF-κB-activator. In parentheses, the first number is expression level before stimulation, the second number is expression level after the stimulation, and the last number is the p-value of the change. The comparisons of gene expression in Th1 and Th2 are made with IEL T cells. Ref. (1) Nagai et al. 2001, (2) Lash et al. 2000 (http://www.ncbi.nlm.nih.gov/SAGE), (3) Hashimoto et al. 1994, (4) Suzuki et al. 2000, (5) www.prevent.m.u-tokyo.ac.jp/SAGE.html.