GO:0006355


GO:0006355

regulation of transcription, DNA-dependent
(annotated genes)

Biological
Process

Parent node

This leaf node contains 1136 genes

The following 183 of these are used in classification:

 SymbolGenenamehigh risk scorelow risk score
40004_atSIX1 sine oculis homeobox homolog 1 (Drosophila)0.2625-0.2487
34990_atSETBP1 SET binding protein 1-0.24940.2363
39755_atXBP1 X-box binding protein 1-0.20130.1907
39421_atRUNX1 runt-related transcription factor 1 (acute myeloid leukemia 1; aml1 oncogene)-0.20070.1902
160043_atMYBL1 v-myb myeloblastosis viral oncogene homolog (avian)-like 10.1914-0.1813
943_atRUNX1 runt-related transcription factor 1 (acute myeloid leukemia 1; aml1 oncogene)-0.18060.1711
33338_atSTAT1 signal transducer and activator of transcription 1, 91kDa0.1713-0.1623
37567_atSALL2 sal-like 2 (Drosophila)-0.16750.1587
40791_atPOLR2A polymerase (RNA) II (DNA directed) polypeptide A, 220kDa-0.16030.1518
32860_g_atSTAT1 signal transducer and activator of transcription 1, 91kDa0.1559-0.1477
41338_atAES amino-terminal enhancer of split-0.15550.1473
AFFX-HUMISGF3A/M97935_3_atSTAT1 signal transducer and activator of transcription 1, 91kDa0.145-0.1373
34928_atZNF205 zinc finger protein 205-0.14230.1349
37920_atPITX1 paired-like homeodomain transcription factor 10.1378-0.1306
35322_atKEAP1 kelch-like ECH-associated protein 1-0.1360.1289
33339_g_atSTAT1 signal transducer and activator of transcription 1, 91kDa0.1338-0.1268
35450_s_atGTF2I general transcription factor II, i-0.13120.1243
39750_atZDHHC3 zinc finger, DHHC domain containing 3-0.12480.1182
39953_i_atKIAA0628 KIAA0628 gene product0.1191-0.1128
1013_atMADH5 MAD, mothers against decapentaplegic homolog 5 (Drosophila)0.1174-0.1112
32583_atJUN v-jun sarcoma virus 17 oncogene homolog (avian)-0.11330.1074
38692_atNAB1 NGFI-A binding protein 1 (EGR1 binding protein 1)-0.11310.1072
35824_atZNF238 zinc finger protein 238-0.11080.1049
AFFX-HUMISGF3A/M97935_MB_atSTAT1 signal transducer and activator of transcription 1, 91kDa0.1099-0.1041
39681_atZNF145 zinc finger protein 145 (Kruppel-like, expressed in promyelocytic leukemia)-0.10860.1029
33381_atNCOA3 nuclear receptor coactivator 30.0972-0.0921
39926_atMADH5 MAD, mothers against decapentaplegic homolog 5 (Drosophila)0.0966-0.0916
38805_atTGIF TGFB-induced factor (TALE family homeobox)0.0946-0.0897
36669_atFOSB FBJ murine osteosarcoma viral oncogene homolog B-0.0910.0862
1939_atTP53 tumor protein p53 (Li-Fraumeni syndrome)-0.08960.0849
AFFX-HUMISGF3A/M97935_MA_atSTAT1 signal transducer and activator of transcription 1, 91kDa0.0893-0.0846
2042_s_atMYB v-myb myeloblastosis viral oncogene homolog (avian)-0.08760.083
31734_atHOXC11 homeo box C110.0868-0.0823
1977_s_atETS1 v-ets erythroblastosis virus E26 oncogene homolog 1 (avian)0.0816-0.0773
32396_f_atERCC2 excision repair cross-complementing rodent repair deficiency, complementation group 2 (xeroderma pigmentosum D)-0.08160.0773
32653_atBRD8 bromodomain containing 80.0807-0.0764
33783_atPLXNB1 plexin B1-0.07940.0753
35145_atMNT MAX binding protein-0.07650.0725
37026_atCOPEB core promoter element binding protein0.0765-0.0725
35488_atSNAPC1 small nuclear RNA activating complex, polypeptide 1, 43kDa0.0764-0.0723
39756_g_atXBP1 X-box binding protein 1-0.07630.0723
41337_atAES amino-terminal enhancer of split-0.07530.0714
36711_atMAFF v-maf musculoaponeurotic fibrosarcoma oncogene homolog F (avian)-0.07520.0712
1817_atPFDN5 prefoldin 5-0.07370.0699
40117_atMCM6 MCM6 minichromosome maintenance deficient 6 (MIS5 homolog, S. pombe) (S. cerevisiae)0.0729-0.069
40662_g_atNR4A3 nuclear receptor subfamily 4, group A, member 30.0728-0.069
603_atNR2C1 nuclear receptor subfamily 2, group C, member 10.071-0.0673
38828_s_atKHSRP KH-type splicing regulatory protein (FUSE binding protein 2)-0.06880.0651
32253_atRERE arginine-glutamic acid dipeptide (RE) repeats-0.06850.0649
32063_atPBX1 pre-B-cell leukemia transcription factor 10.0682-0.0646
32066_g_atCREM cAMP responsive element modulator0.0681-0.0645
38179_atZNF174 zinc finger protein 174-0.06790.0643
38426_atTAF11 TAF11 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 28kDa0.0669-0.0633
39688_atDPF2 D4, zinc and double PHD fingers family 2-0.06520.0618
37636_atPHF16 PHD finger protein 160.0651-0.0616
1271_g_atRELA v-rel reticuloendotheliosis viral oncogene homolog A, nuclear factor of kappa light polypeptide gene enhancer in B-cells 3, p65 (avian)-0.06450.0611
32244_atC14orf92 chromosome 14 open reading frame 92-0.06410.0607
35685_atRING1 ring finger protein 1-0.06360.0603
33329_atNFIC nuclear factor I/C (CCAAT-binding transcription factor)-0.06280.0595
35826_atSUPT5H suppressor of Ty 5 homolog (S. cerevisiae)-0.0610.0578
33440_atTCF8 transcription factor 8 (represses interleukin 2 expression)0.0609-0.0577
32067_atCREM cAMP responsive element modulator0.0609-0.0577
35804_atASH2L ash2 (absent, small, or homeotic)-like (Drosophila)0.0604-0.0572
1039_s_atHIF1A hypoxia-inducible factor 1, alpha subunit (basic helix-loop-helix transcription factor)0.0601-0.0569
41203_atSF1 splicing factor 1-0.0590.0559
32034_atZNF217 zinc finger protein 2170.0568-0.0538
40126_atPRRX1 paired related homeobox 10.0564-0.0535
32712_atMYT1L myelin transcription factor 1-like0.0557-0.0528
34585_atDLX2 distal-less homeo box 2-0.05550.0525
38317_atTCEAL1 transcription elongation factor A (SII)-like 10.0535-0.0507
32841_atZNF9 zinc finger protein 9 (a cellular retroviral nucleic acid binding protein)-0.05290.0501
36383_atERG v-ets erythroblastosis virus E26 oncogene like (avian)0.0528-0.05
41436_atZNF198 zinc finger protein 198-0.05150.0488
39954_r_atKIAA0628 KIAA0628 gene product0.0515-0.0488
1456_s_atIFI16 interferon, gamma-inducible protein 160.0514-0.0487
2084_s_atETV4 ets variant gene 4 (E1A enhancer binding protein, E1AF)-0.05120.0485
37928_atNFYB nuclear transcription factor Y, beta0.0512-0.0485
40849_s_atCREB3 cAMP responsive element binding protein 3-0.04720.0447
35559_atRORC RAR-related orphan receptor C-0.04720.0447
445_atNKX3-1 NK3 transcription factor related, locus 1 (Drosophila)-0.04710.0446
462_atNFIB nuclear factor I/B0.0459-0.0435
39112_atUSF2 upstream transcription factor 2, c-fos interacting-0.04570.0433
37305_atEZH2 enhancer of zeste homolog 2 (Drosophila)0.0436-0.0413
41311_f_atNR2F6 nuclear receptor subfamily 2, group F, member 6-0.04350.0412
41822_atZNF324 zinc finger protein 324-0.04340.0412
32809_atZNF24 zinc finger protein 24 (KOX 17)-0.04260.0404
1882_g_atRUNX1 runt-related transcription factor 1 (acute myeloid leukemia 1; aml1 oncogene)0.0422-0.04
38342_atPHF15 PHD finger protein 15-0.04190.0397
31944_atTULP3 tubby like protein 30.0411-0.039
37500_atZNF175 zinc finger protein 1750.0399-0.0378
41324_g_atFOXM1 forkhead box M1-0.03960.0376
41344_s_atPURA purine-rich element binding protein A-0.03960.0375
34715_atFOXM1 forkhead box M10.039-0.0369
33289_f_atZNF263 zinc finger protein 263-0.03890.0369
40375_atEGR3 early growth response 3-0.03880.0368
37882_atGTF2E1 general transcription factor IIE, polypeptide 1, alpha 56kDa0.0386-0.0366
37252_atSNAPC2 small nuclear RNA activating complex, polypeptide 2, 45kDa-0.03810.0361
38795_s_atUBTF upstream binding transcription factor, RNA polymerase I-0.03780.0358
41612_atZNF264 zinc finger protein 2640.036-0.0341
38314_atCIC capicua homolog (Drosophila)-0.03450.0327
32751_atILF3 interleukin enhancer binding factor 3, 90kDa-0.03430.0325
41625_atTRAP240 thyroid hormone receptor-associated protein, 240 kDa subunit0.0339-0.0321
39072_atMXI1 MAX interacting protein 1-0.03350.0317
39942_atBATF basic leucine zipper transcription factor, ATF-like-0.03250.0308
37010_atGTF2A2 general transcription factor IIA, 2, 12kDa0.0322-0.0305
38165_s_atMLL2 myeloid/lymphoid or mixed-lineage leukemia 2-0.03190.0302
35992_atMSC musculin (activated B-cell factor-1)0.0304-0.0288
41091_atFALZ fetal Alzheimer antigen0.03-0.0284
37152_atPPARD peroxisome proliferative activated receptor, delta0.0299-0.0283
36516_atZNF473 zinc finger protein 473-0.02950.0279
1325_atMADH1 MAD, mothers against decapentaplegic homolog 1 (Drosophila)0.0292-0.0277
39358_atNCOR2 nuclear receptor co-repressor 2-0.0290.0275
1156_atSP1 Sp1 transcription factor0.0289-0.0273
41526_atHMG20B high-mobility group 20B-0.02880.0273
35681_r_atZFHX1B zinc finger homeobox 1b0.0279-0.0264
39171_atCTNNBIP1 catenin, beta interacting protein 1-0.02760.0261
32597_atRBL2 retinoblastoma-like 2 (p130)0.0269-0.0255
32045_atDATF1 death associated transcription factor 10.0268-0.0254
39032_atTSC22 transforming growth factor beta-stimulated protein TSC-22-0.02630.0249
32087_atHSF2 heat shock transcription factor 2-0.02620.0248
131_atTAF11 TAF11 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 28kDa0.0258-0.0245
137_atKLF1 Kruppel-like factor 1 (erythroid)-0.02570.0244
40609_atHELSNF1 helicase with SNF2 domain 1-0.02530.024
32065_atCREM cAMP responsive element modulator0.0236-0.0224
40466_atNFYC nuclear transcription factor Y, gamma-0.02350.0223
32458_f_atPRB4 proline-rich protein BstNI subfamily 4-0.02340.0222
465_atHTATIP HIV-1 Tat interactive protein, 60kDa-0.02290.0217
41441_atTBP TATA box binding protein-0.02210.0209
38810_atHDAC5 histone deacetylase 5-0.02140.0202
654_atMXI1 MAX interacting protein 1-0.02110.02
32099_atSAFB2 scaffold attachment factor B2-0.02070.0196
32543_atCALR calreticulin-0.02020.0191
33793_atTCF20 transcription factor 20 (AR1)-0.02010.0191
32696_atPBX3 pre-B-cell leukemia transcription factor 3-0.01970.0187
35629_atMKL1 megakaryoblastic leukemia (translocation) 1-0.01950.0185
39722_atNCOR1 nuclear receptor co-repressor 1-0.01950.0184
37396_atRFXANK regulatory factor X-associated ankyrin-containing protein0.0194-0.0184
37254_atZNF133 zinc finger protein 133 (clone pHZ-13)-0.01920.0182
32054_atCCNT2 cyclin T20.0187-0.0177
34455_atZNF20 zinc finger protein 20 (KOX 13)-0.01870.0177
35022_atSOX5 SRY (sex determining region Y)-box 50.0186-0.0176
38517_atISGF3G interferon-stimulated transcription factor 3, gamma 48kDa0.0174-0.0164
39839_atCSDA cold shock domain protein A-0.01650.0156
34178_atZNF297 zinc finger protein 297-0.01620.0154
31588_atHMGB3 high-mobility group box 30.0157-0.0149
33315_atC2orf3 chromosome 2 open reading frame 3-0.01270.0121
32635_atTRIM33 tripartite motif-containing 33-0.01270.012
40569_atZNF42 zinc finger protein 42 (myeloid-specific retinoic acid-responsive)-0.01270.012
34843_atZNF516 zinc finger protein 516-0.01230.0117
39261_atHKR3 GLI-Kruppel family member HKR3-0.01120.0106
40837_atTLE2 transducin-like enhancer of split 2 (E(sp1) homolog, Drosophila)-0.01110.0105
31952_atRPL6 ribosomal protein L6-0.00990.0094
31943_g_atTULP3 tubby like protein 30.0099-0.0093
34313_atNCOA2 nuclear receptor coactivator 20.0097-0.0092
33655_f_atSSX3 synovial sarcoma, X breakpoint 3-0.00960.0091
35640_atCBFA2T1 core-binding factor, runt domain, alpha subunit 2; translocated to, 1; cyclin D-related0.0094-0.0089
37189_atPIPPIN RNA-binding protein pippin-0.00930.0088
35008_atPER2 period homolog 2 (Drosophila)-0.0080.0076
40392_atCDX2 caudal type homeo box transcription factor 2-0.00780.0074
41355_atBCL11A B-cell CLL/lymphoma 11A (zinc finger protein)-0.00740.007
1672_f_atRB1 retinoblastoma 1 (including osteosarcoma)0.0071-0.0067
38508_s_atCREBL1 cAMP responsive element binding protein-like 1-0.0070.0066
34325_atPQBP1 polyglutamine binding protein 1-0.00680.0064
34296_atMID1 midline 1 (Opitz/BBB syndrome)-0.00670.0064
39708_atSTAT3 signal transducer and activator of transcription 3 (acute-phase response factor)-0.00670.0064
37370_i_atNFATC4 nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 40.0067-0.0063
41348_atIRX5 iroquois homeobox protein 50.0066-0.0063
35019_atZNF254 zinc finger protein 254-0.00560.0053
1986_atRBL2 retinoblastoma-like 2 (p130)0.0052-0.0049
37837_atKIAA0863 KIAA0863 protein0.005-0.0047
41235_atATF4 activating transcription factor 4 (tax-responsive enhancer element B67)-0.00480.0045
40358_atGLI3 GLI-Kruppel family member GLI3 (Greig cephalopolysyndactyly syndrome)-0.00470.0044
37417_atPOU2F2 POU domain, class 2, transcription factor 2-0.00440.0042
32155_atTFAP2A transcription factor AP-2 alpha (activating enhancer binding protein 2 alpha)0.0043-0.0041
40754_atGTF2H3 general transcription factor IIH, polypeptide 3, 34kDa0.0032-0.003
32936_atZNF41 zinc finger protein 410.0027-0.0026
31517_f_atBTF3L2 basic transcription factor 3, like 2-0.00120.0011
39219_atCEBPG CCAAT/enhancer binding protein (C/EBP), gamma7e-04-7e-04
1474_s_atMYB v-myb myeloblastosis viral oncogene homolog (avian)-7e-046e-04
32073_atJMJD2A jumonji domain containing 2A-7e-046e-04
37393_atHES1 hairy and enhancer of split 1, (Drosophila)-5e-045e-04
36409_f_atSSX2 synovial sarcoma, X breakpoint 2-5e-045e-04
34724_atGRLF1 glucocorticoid receptor DNA binding factor 1-3e-043e-04

Performance on training data

 SensitivitySpecificity
high risk0.888890.89474
low risk0.894740.88889

Performance on test data

 SensitivitySpecificity
high risk0.888890.89474
low risk0.894740.88889

Predictions

 Classhigh risklow riskPredictionn
00290952H95A2T01407 (testset)low risk0.021410.97859 low risk
00290964H95A2T01439 (testset)low risk0.031120.96888 low risk
00290966H95A2T01461 (testset)low risk0.014940.98506 low risk
00291004H95A2T01194 (testset)high risk0.325040.67496 low risk
00291005H95A2T01047 (testset)low risk01 low risk
00291046HU95A2-T01-502 (testset)high risk0.454630.54537 low risk
00291048HU95A2-T01-514 (testset)low risk0.012670.98733 low risk
00291053HU95A2-T01-618 (testset)low risk0.001270.99873 low risk
00291087H95A2-T01-255 (testset)high risk0.997540.00246 high risk
00291092H95A2-T01-838 (testset)high risk0.993830.00617 high risk
00291126H95A2-T010310 (testset)high risk0.934330.06567 high risk
00291127H95A2-T010585 (testset)high risk0.957590.04241 high risk
00291165HU95A2T01-472 (testset)high risk10 high risk
00291187H95A2-T00-0064 (testset)high risk0.999080.00092 high risk
00291188H95A2-T00-0070 (testset)high risk0.996950.00305 high risk
00291189H95A2-T00-0109 (testset)high risk0.999560.00044 high risk
00291191H95A2-KF67 (testset)high risk0.993050.00695 high risk
0029_1208_H95A2_KF0076 (testset)low risk0.47470.5253 low risk
0029_1209_H95Av2_KF0077 (testset)low risk3e-050.99997 low risk
0029_1210_H95A2_KF0079 (testset)low risk0.000540.99946 low risk
0029_1213_H95A2_KF0110 (testset)low risk0.935620.06438 high risk
0029_1221_H95A2_KF0144 (testset)low risk0.144010.85599 low risk
0029_1225_H95A2_KF0157 (testset)low risk0.000760.99924 low risk
0029_1264_H95A2_KF145 (testset)high risk0.672070.32793 high risk
0029_1265_H95A2_KF151 (testset)high risk0.960060.03994 high risk
0029_1266_H95A2_KF155 (testset)high risk0.901720.09828 high risk
0029_1287_H95A2_KF-184 (testset)high risk0.971220.02878 high risk
0029_1289_H95A2_KF-201 (testset)high risk0.948430.05157 high risk
0029_1291_H95A2_KF-097 (testset)high risk0.997160.00284 high risk
0029_1340_H95A2_KF-069 (testset)high risk0.998830.00117 high risk
0029_1349_H95A2_KF-113 (testset)low risk0.005090.99491 low risk
0029_1351_H95A2_KF-117 (testset)low risk0.259450.74055 low risk
0029_1352_H95A2_KF-120 (testset)low risk0.000190.99981 low risk
0029_1375_H95A2_KF-094 (testset)low risk0.016190.98381 low risk
0029_1376_H95A2_KF-095 (testset)low risk0.215230.78477 low risk
0029_1377_H95A2_KF-104 (testset)low risk0.500220.49978 high risk
0029_1396_H95A2_KF-105 (testset)low risk0.049160.95084 low risk

 


Generated by StAM on Mon Sep 6 17:55:54 2004