| Table 2b. A list of all significantly changed genes in SKBR-3. | ||||
| CloneID | Cal. Ratio | Cell Line Int. | Refer. Int | Description |
| 34647 | 96.131 | 2322.8 | 10.9 | Human mRNA for Nm23 protein, involved in developmental regulation (ho |
| 488596 | 49.712 | 1341.0 | 12.1 | CD82 (similar to inducible protein R2) |
| 35559 | 13.637 | 1736.1 | 57.2 | H.sapiens mitoxantrone-resistance associated mRNA |
| 50816 | 12.557 | 2243.0 | 80.3 | Human 2',3'-cyclic-nucleotide 3'-phosphodiesterase gene |
| 180447 | 9.751 | 1449.5 | 66.8 | Fibroblast growth factor receptor 3 |
| 49950 | 6.816 | 2407.4 | 158.7 | rad2 = Homologue of yeast DNA repair gene |
| 248032 | 5.178 | 3404.6 | 295.4 | Topoisomerase II |
| 39903 | 5.111 | 5930.0 | 521.4 | Human (HepG2) glucose transporter gene mRNA, complete cds |
| 42058 | 5.029 | 2389.9 | 213.6 | Homo sapiens epidermal growth factor receptor-binding protein GRB2 (EGFRBP-GRB2) mRNA sequence |
| 42214 | 4.920 | 1615.2 | 147.5 | Homo sapiens protein tyrosine kinase (Syk) mRNA, complete cds |
| 37118 | 4.874 | 1454.3 | 134.1 | Human mRNA for motor protein, complete cds |
| 32615 | 4.820 | 1980.6 | 184.6 | H.sapiens NAP (nucleosome assembly protein) mRNA, complete cds |
| 45233 | 4.690 | 2558.2 | 245.1 | Human chaperonin protein (Tcp20) gene complete cds |
| 32636 | 4.299 | 1289.3 | 134.8 | Human MAR/SAR DNA binding protein (SATB1) mRNA, complete cds |
| 41559 | 3.987 | 2599.9 | 293.1 | Human ubiquitin-like protein (GdX) gene, complete cds |
| 28116 | 3.936 | 3635.5 | 415.1 | Human Rch1 (RCH1) mRNA, complete cds |
| 48503 | 3.917 | 1643.7 | 188.6 | Human X-linked PEST-containing transporter (XPCT) mRNA, partial cds |
| 365147 | 3.912 | 16232.4 | 1864.8 | HER2 = tyrosine kinase-type receptor |
| 39884 | 3.876 | 6978.1 | 809.1 | Human IMP dehydrogenase type 1 mRNA complete cds |
| 44105 | 3.748 | 2805.1 | 336.3 | Human mRNA for ORF |
| 264606 | 3.744 | 2832.2 | 339.9 | Homologue of High affinity Fc gamma receptor I - B Form |
| 221690 | 3.702 | 1188.3 | 144.2 | Homologue of RP-8 |
| 509710 | 3.641 | 1191.1 | 147.0 | Human transcriptional activator (BRG1) mRNA, complete cds |
| 42096 | 3.624 | 9037.0 | 1120.5 | Human cytoplasmic chaperonin hTRiC5 mRNA, partial cds |
| 30802 | 3.520 | 2473.9 | 315.8 | H.sapiens mRNA for seryl-tRNA synthetase |
| 427686 | 3.501 | 1976.1 | 253.6 | NF-E2 |
| 42059 | 3.426 | 3407.2 | 446.8 | Human dihydrolipoamide dehydrogenase mRNA, complete cds |
| 42777 | 3.381 | 1264.9 | 168.1 | Human GST1-Hs mRNA for GTP-binding protein |
| 28089 | 3.309 | 2534.3 | 344.1 | Homo sapiens neuron-specific protein gene, last exon, clone D4S234 |
| 44414 | 3.128 | 2559.1 | 367.6 | Homo sapiens iduronate-2-sulfatase (IDS) gene |
| 35320 | 3.103 | 4785.3 | 692.9 | Human guanine nucleotide regulatory protein (nep1) mRNA, complete cds |
| 271662 | 3.076 | 5547.5 | 810.4 | CHED = cdc2-related kinase |
| 35483 | 2.913 | 2800.9 | 432.1 | Human U1 snRNP-specific protein A gene |
| 50322 | 2.901 | 7835.1 | 1213.8 | Human natural killer cell enhancing factor (NKEFA) mRNA, complete cds |
| 510405 | 2.833 | 13172.5 | 2089.5 | CEA |
| 31155 | 2.814 | 2927.4 | 467.4 | H.sapiens MLN64 mRNA |
| 43229 | 2.805 | 16353.0 | 2619.5 | Human proliferating cell nuclear antigen (PCNA) gene, complete cds |
| 284459 | 2.764 | 1697.0 | 275.9 | PKC Beta II |
| 21810 | 2.762 | 8334.7 | 1356.2 | Human poly(ADP-ribose) synthetase mRNA, complete cds |
| 327396 | 0.357 | 10871.3 | 13665.8 | PITSLRE alpha 1 |
| 380738 | 0.348 | 826.0 | 1065.6 | TRANSCRIPTION FACTOR ITF-2 |
| 26087 | 0.346 | 2151.4 | 2793.3 | H.sapiens GSTT1 mRNA |
| 23073 | 0.345 | 959.3 | 1248.0 | Human basic fibroblast growth factor (bFGF) 22.5 kd, 21 kd and 18 kd protein mRNA, complete cds |
| 484993 | 0.343 | 11780.9 | 15421.4 | CD81 ANTIGEN |
| 489419 | 0.340 | 770.2 | 1017.0 | PAX-3/FKHR |
| 469256 | 0.337 | 853.5 | 1137.2 | Bag-1 = Bcl-2 interacting protein |
| 29054 | 0.334 | 1291.4 | 1739.9 | H.sapiens mRNA for alpha-centractin |
| 39796 | 0.334 | 1824.3 | 2453.9 | Human hydroxymethylglutaryl-CoA lyase mRNA, complete cds |
| 26593 | 0.332 | 2397.8 | 3249.5 | Human complement C1r mRNA, complete cds |
| 28595 | 0.332 | 6099.9 | 8268.6 | Human leukotriene A-4 hydrolase mRNA, complete cds |
| 36560 | 0.329 | 1113.8 | 1523.0 | Human amyloid protein (AD-AP) mRNA, 3' end |
| 488092 | 0.327 | 807.3 | 1110.4 | ESTs, Highly similar to TRANSCRIPTIONAL ACTIVATOR GCN5 [Saccharomyces cerevisiae] |
| 22012 | 0.322 | 1642.2 | 2293.3 | Human ADP-ribosylation factor (ARF3) mRNA, complete cds |
| 39380 | 0.311 | 2513.2 | 3635.4 | Human somatostatin I gene and flanks |
| 375724 | 0.311 | 9697.3 | 14028.9 | CAMP-dependent transcription factor ATF-4 (CREB2) |
| 364278 | 0.310 | 2354.8 | 3415.3 | c-maf = NRL |
| 51018 | 0.308 | 1634.3 | 2380.6 | Human lipocortin II mRNA, complete cds |
| 297589 | 0.308 | 845.3 | 1233.2 | AIM1 |
| 471889 | 0.304 | 974.5 | 1440.2 | COUP TRANSCRIPTION FACTOR |
| 485690 | 0.300 | 7733.6 | 11595.4 | MYOSIN HEAVY CHAIN |
| 288650 | 0.299 | 724.9 | 1088.9 | ESTs, Highly similar to SIGNAL TRANSDUCER AND ACTIVATOR OF TRANSCRIPTION 3 [Mus musculus] |
| 365647 | 0.299 | 10234.1 | 15363.1 | CD4 |
| 39285 | 0.296 | 790.1 | 1198.3 | Human liver glutamate dehydrogenase mRNA, complete cds |
| 26789 | 0.293 | 2438.6 | 3746.3 | Human laminin B2 chain mRNA, complete cds |
| 32684 | 0.293 | 4140.4 | 6360.3 | Human mRNA for ribosomal protein L32 |
| 37380 | 0.291 | 4975.9 | 7683.9 | Human proalpha 1 (I) chain of type I procollagen mRNA (partial) |
| 323162 | 0.285 | 4185.1 | 6587.3 | cdk3 |
| 361815 | 0.285 | 1025.7 | 1617.8 | ESTs, Highly similar to TRANSCRIPTIONAL ACTIVATOR FE65 [Rattus norvegicus] |
| 259291 | 0.282 | 2313.3 | 3686.9 | INTEGRIN BETA-5 |
| 39827 | 0.279 | 5946.6 | 9567.3 | Human 136-kDa double-stranded RNA binding protein p136 (K88dsRBP) mRNA, complete cds |
| 40764 | 0.276 | 4657.5 | 7574.6 | Human AD amyloid mRNA, complete cds |
| 363799 | 0.272 | 11990.6 | 19779.5 | CLK-1 (CDC-like kinase) |
| 310406 | 0.265 | 4046.7 | 6855.7 | IL-6 |
| 429976 | 0.252 | 1375.3 | 2454.5 | G0S3 = GOS-3? = human homologue of mouse Fos B |
| 44584 | 0.247 | 1766.1 | 3214.3 | Human RIG mRNA, complete sequence |
| 32409 | 0.245 | 2374.5 | 4354.4 | Human mRNA (HA1756) for ORF, complete cds |
| 39159 | 0.244 | 1143.2 | 2103.0 | Homo sapiens phosphoglycerate mutase (PGAM-B) mRNA, complete cds |
| 417357 | 0.243 | 4299.5 | 7952.3 | mkp-1 = CL100 = MAP kinase phosphatase |
| 41094 | 0.242 | 832.7 | 1546.1 | Human tie mRNA for putative receptor tyrosine kinase |
| 39781 | 0.236 | 3257.6 | 6192.8 | Human melanoma-associated antigen ME491 mRNA, complete cds |
| 343166 | 0.236 | 1025.3 | 1949.5 | PSSALRE = cdk5 |
| 34005 | 0.233 | 873.1 | 1685.2 | Interferon gamma receptor beta chain |
| 38983 | 0.232 | 901.0 | 1746.4 | Human placental FXIIIa mRNA, complete cds |
| 47386 | 0.225 | 838.8 | 1673.2 | Human alpha-1-antichymotrypsin mRNA, 3' end |
| 470062 | 0.225 | 785.5 | 1568.0 | DNA ligase III |
| 52162 | 0.224 | 2960.8 | 5951.6 | Elongin B = SIII p18 subunit |
| 242134 | 0.224 | 691.9 | 1385.4 | TUBULIN ALPHA-1 CHAIN |
| 360531 | 0.224 | 1576.3 | 3161.4 | raf-a = pks = a-raf |
| 26474 | 0.223 | 7446.5 | 14985.3 | c-fos |
| 310141 | 0.223 | 750.5 | 1510.2 | gadd45 (growth arrest &DNA Damage inducible protein) |
| 417403 | 0.221 | 556.6 | 1129.5 | raf-b = B-raf |
| 36904 | 0.217 | 4567.1 | 9444.0 | Human mRNA for CIRP |
| 40562 | 0.215 | 617.9 | 1290.8 | Human beta-sarcoglycan dystrophin-associated glycoprotein mRNA, complete cds |
| 470251 | 0.214 | 2715.3 | 5693.6 | IL-15 receptor alpha chain |
| 135118 | 0.208 | 515.2 | 1113.4 | TRANS-ACTING T-CELL SPECIFIC TRANSCRIPTION FACTOR GATA-3 |
| 49967 | 0.207 | 548.1 | 1187.5 | Human intercellular adhesion molecule 2 (ICAM-2) gene |
| 39148 | 0.202 | 600.7 | 1334.8 | Human fibromodulin mRNA, partial cds |
| 295389 | 0.201 | 474.0 | 1059.1 | GHR Receptor |
| 32427 | 0.194 | 1838.5 | 4258.3 | H.sapiens hPTPA mRNA |
| 50032 | 0.184 | 878.6 | 2140.3 | Human interferon-gamma receptor mRNA, complete cds |
| 309477 | 0.184 | 3480.9 | 8494.0 | jun-B |
| 44722 | 0.182 | 1303.3 | 3215.9 | H.sapiens mRNA for transcript associated with monocyte to macrophage differentiation |
| 22379 | 0.174 | 654.3 | 1694.4 | Human lymphocytic antigen CD59/MEM43 mRNA, complete cds |
| 26871 | 0.174 | 602.7 | 1554.8 | Fibroblast growth factor receptor 2 |
| 359769 | 0.172 | 2717.1 | 7079.4 | mss4 |
| 22445 | 0.168 | 703.8 | 1886.1 | Human cytochrome b561 gene |
| 299539 | 0.168 | 1174.1 | 3136.1 | FHF-1 = fibroblast growth factor homologous factor 1 |
| 301363 | 0.162 | 547.4 | 1519.5 | S100 alpha protein |
| 31355 | 0.157 | 1090.7 | 3124.4 | H.sapiens Id1 mRNA |
| 32750 | 0.152 | 521.9 | 1543.5 | H.sapiens serum paraoxonase (PON) mRNA, complete cds |
| 24638 | 0.147 | 787.6 | 2409.4 | Human ras-related protein (Krev-1) mRNA, complete cds |
| 209655 | 0.125 | 462.6 | 1663.0 | TGF-BETA RECEPT |
| 33943 | 0.124 | 1052.0 | 3799.8 | Human beta-galactosidase (GLB1) mRNA, complete cds |
| 162479 | 0.122 | 3454.4 | 12706.5 | ESTs, Highly similar to ETS-RELATED TRANSCRIPTION FACTOR ELF-1 [Homo sapiens] |
| 25400 | 0.116 | 1130.5 | 4389.3 | Human transcription factor (ITF-2) mRNA, 3' end |
| 37347 | 0.106 | 3424.4 | 14515.9 | Human Ia-associated invariant gamma-chain gene |
| 486716 | 0.103 | 1356.2 | 5918.6 | erk1 = extracellular signal-regulated kinase 1 |
| 358168 | 0.102 | 406.0 | 1794.2 | p40MO15 |
| 39093 | 0.100 | 1345.9 | 6067.3 | Human eIF-2-associated p67 homolog mRNA, complete cds |
| 510130 | 0.098 | 570.2 | 2610.6 | cadherin-LI |
| 40151 | 0.093 | 1057.0 | 5095.2 | Human apolipoprotein D mRNA, complete cds |
| 359793 | 0.093 | 2121.4 | 10264.8 | IGF II |
| 428248 | 0.084 | 418.8 | 2229.8 | Activating transcription factor 3 |
| 359077 | 0.083 | 184.7 | 1000.3 | Fibronectin Recpt Alpha |
| 25880 | 0.082 | 991.5 | 5427.4 | Homo sapiens beta-globin (HBB) gene, with c to t allele, (J00179 bases 61989-63820) |
| 44495 | 0.082 | 366.8 | 2005.8 | H.sapiens HSJ1 mRNA |
| 40111 | 0.076 | 1040.2 | 6111.4 | Human mRNA for transcription factor AREB6, complete cds |
| 26801 | 0.073 | 3630.2 | 22392.2 | Human mRNA for LA45 gene |
| 33415 | 0.070 | 1081.4 | 6936.3 | Human DNA for plasma glutathione peroxidase, exon 3, 4 and 5 |
| 280768 | 0.070 | 388.2 | 2497.0 | Tumor Associated Antigen L6 |
| 219735 | 0.068 | 172.7 | 1143.8 | GUANINE NUCLEOTIDE-BIND |
| 268652 | 0.068 | 276.7 | 1827.3 | p21 cyclin kinase inhibitor |
| 39965 | 0.067 | 1430.4 | 9655.0 | Human 22kDa smooth muscle protein (SM22) mRNA, complete cds |
| 32682 | 0.066 | 2102.2 | 14301.1 | H.sapiens vimentin gene |
| 154472 | 0.064 | 178.3 | 1249.6 | Fibroblast growth factor receptor 1 |
| 21531 | 0.049 | 486.9 | 4435.2 | Human helix-loop-helix basic phosphoprotein (G0S8) gene, complete cds |
| 23346 | 0.047 | 1127.7 | 10816.8 | Human SPARC/osteonectin mRNA, complete cds |
| 85906 | 0.042 | 270.4 | 2915.1 | CD31 = PECAM-1 |
| 47648 | 0.041 | 120.3 | 1315.1 | Human endoglin mRNA, 3' end |
| 162772 | 0.037 | 1566.6 | 18781.3 | EGR-1 |
| 36916 | 0.034 | 3486.3 | 46049.5 | Homo sapiens MHC HLA-B39 mRNA, complete cds |
| 38567 | 0.032 | 2659.1 | 36831.2 | Human mRNA for plasma gelsolin |
| 49751 | 0.029 | 242.9 | 3758.7 | H.sapiens mRNA for alpha 7B integrin |
| 161023 | 0.026 | 391.4 | 6896.1 | Immunoglobulin J chain |
| 34005 | 0.025 | 143.8 | 2533.9 | Human clone pSK1 interferon gamma receptor accessory factor-1 (AF-1) |
| 213502 | 0.016 | 267.4 | 7430.2 | Leukocyte Antigen CD53 |
| 154441 | 0.015 | 355.3 | 10949.3 | Immunoglobulin alpha-1 chain constant region |
| 359466 | 0.014 | 137.9 | 4447.7 | VON WILLEBRAND FACTOR |
| 241489 | 0.012 | 369.8 | 13837.7 | BETA-2 ADRENERGIC RECEPTOR |
| 38573 | 0.006 | 433.6 | 30585.6 | Human lipoprotein lipase mRNA, complete cds |