Table 4.
Functional classification of genes modulated by iloprost in SSc patients with digital ulcers
| Probe set ID | Gene Title | Gene symbol | F.C. SSc ulcers/healthy | F.C. SSc ulcers post-treatment/SSc ulcers pre-treatment | Representative Public ID |
|---|---|---|---|---|---|
| Positive regulation of anti-apoptosis | |||||
| 210621_s_at | RAS p21 protein activator (GTPase activating protein) 1 | RASA1 | 8.72 down | 4.28 up | M23612 |
| 214917_at | protein kinase, AMP-activated, alpha 1 catalytic subunit | PRKAA1 | 6.49 down | 6.60 up | AK024252 |
| 201849_at | BCL2/adenovirus E1B 19 kDa interacting protein 3 | BNIP3 | 69.04 down | 11.78 up | NM_004052 |
| Response to stress | |||||
| 200985_s_at | CD59 molecule, complement regulatory protein | CD59 | 18.76 down | 2.72 up | NM_000611 |
| 202906_s_at | nibrin | NBN | 12.38 down | 4.28 up | AF049895 |
| 206040_s_at | mitogen-activated protein kinase 11 | MAPK11 | 17.27 up | 10.62 down | NM_002751 |
| 209305_s_at | growth arrest and DNA-damage-inducible. beta | GADD45B | 13.58 down | 8.27 down | AF078077 |
| 210512_s_at | vascular endothelial growth factor | VEGF | 36.08 down | 5.58 up | AF022375 |
| 213756_s_at | heat shock transcription factor 1 | HSF1 | 8.12 up | 3.47 down | AI393937 |
| 217684_at | thymidylate synthetase | TYMS | 4.21 down | 3.30 up | BG281679 |
| 220038_at | serum/glucocorticoid regulated kinase family. member 3 | SGK3 | 8.24 down | 9.60 down | NM_013257 |
| Response to wounding and wound healing | |||||
| 209277_at | Tissue factor pathway inhibitor 2 | TFPI2 | 9.85 down | 2.62 up | AL574096 |
| 203294_s_at | lectin, mannose-binding, 1 | LMAN1 | 11.53 up | 9.84 down | U09716 |
| 205767_at | epiregulin | EREG | 5.13 down | 3.61 down | NM_001432 |
| 209101_at | connective tissue growth factor | CTGF | 595.44 down | 14.43 up | M92934 |
| Wnt receptor activity | |||||
| 203987_at | frizzled homolog 6 | FZD6 | 39.71 down | 2.18 up | NM_003506 |
| Receptor complex | |||||
| 201474_s_at | integrin. alpha 3 | ITGA3 | 5.21 down | 2.36 up | NM_002204 |
| 204625_s_at | integrin. beta 3 | ITGB3 | 2.17 up | 2.47 down | BF115658 |
| 206009_at | integrin. alpha 9 | ITGA9 | 3.18 down | 3.58 down | NM_002207 |
| 211772_x_at | cholinergic receptor. nicotinic. alpha 3 | CHRNA3 | 2.54 up | 4.46 down | BC006114 |
| 204773_at | interleukin 11 receptor. alpha | IL11RA | 15.25 down | 2.90 down | NM_004512 |
| membrane | |||||
| 202637_s_at | intercellular adhesion molecule 1 (CD54) | ICAM1 | 28.90 down | 6.61 up | AI608725 |
| 203699_s_at | deiodinase, iodothyronine, type II | DIO2 | 7.75 up | 10.10 down | U53506 |
| 203988_s_at | fucosyltransferase 8 (alpha (1,6) fucosyltransferase) | FUT8 | 17.44 down | 17.71 up | NM_004480 |
| 204273_at | endothelin receptor type B | EDNRB | 10.11 up | 2.75 down | NM_000115 |
| 205421_at | solute carrier family 22, member 3 | SLC22A3 | 6.50 up | 6.21 down | NM_021977 |
| 213856_at | CD47 molecule | CD47 | 12.43 down | 10.98 up | BG230614 |
| Chemotaxis | |||||
| 205242_at | chemokine (C-X-C motif) ligand 13 | CXCL13 | 3.03 down | 7.56 up | NM_006419 |
| 209687_at | chemokine (C-X-C motif) ligand 12 | CXCL12 | 24.98 down | 2.54 up | U19495 |
| 210845_s_at | plasminogen activator, urokinase receptor | PLAUR | 12.79 down | 2.05 up | U08839 |
| 207850_at | chemokine (C-X-C motif) ligand 3 | CXCL3 | 24.57 down | 3.15 down | NM_002090 |
| 210163_at | chemokine (C-X-C motif) ligand 11 | CXCL11 | 34.76 down | 5.60 up | AF030514 |
| 215723_s_at | phospholipase D1, phosphatidylcholine-specific | PLD1 | 12.37 down | 3.08 up | AJ276230 |
| 219825_at | cytochrome P450, family 26, subfamily B, polypeptide 1 | CYP26B1 | 17.74 down | 15.25 up | NM_019885 |
| DNA-dependent DNA replication | |||||
| 205085_at | origin recognition complex, subunit 1-like | ORC1L | 10.43 down | 7.25 up | NM_004153 |
| 208070_s_at | REV3-like, catalytic subunit of DNA polymerase zeta | REV3L | 38,90 down | 2.80 down | NM_002912 |
| 208808_s_at | high-mobility group box 2 | HMGB2 | 5.53 down | 2.41 up | BC000903 |
| 209084_s_at | RAB28, member RAS oncogene family | RAB28 | 23.27 down | 2.09 up | BE504689 |
| 210892_s_at | general transcription factor II, i | GTF2I | 3.72 down | 3.64 up | BC004472 |
| DNA-dependent DNA replication | |||||
| 205085_at | carbonyl reductase 1 | CBR1 | 2.39 up | 2.34 down | BC002511 |
| G0 to G1 transition | |||||
| 205655_at | Mdm4, p53 binding protein | MDM4 | 3.27 down | 6.07 up | NM_002393 |
| platelet-derived growth factor beta-receptor activity | |||||
| 205226_at | platelet-derived growth factor receptor-like | PDGFRL | 5.33 up | 9.50 down | NM_006207 |
| actin cytoskeleton organization and biogenesis | |||||
| 209209_s_at | pleckstrin homology domain containing, family C, member1 | PLEKHC1 | 51.02 down | 13.59 up | AW469573 |
| 216621_at | Rho-associated, coiled-coil containing protein kinase 1 | ROCK1 | 8.58 down | 8.52 up | AL050032 |
| 220997_s_at | diaphanous homolog 3 (Drosophila) | DIAPH3 | 3.72 down | 10.53 up | NM_030932 |
| 208614_s_at | filamin B, beta (actin binding protein 278) | FLNB | 59.49 down | 2.91 down | M62994 |
| 214925_s_at | spectrin, alpha, non-erythrocytic 1 (alpha-fodrin) | SPTAN1 | 13.23 down | 2.62 down | AK026484 |
| 215602_at | FYVE, RhoGEF and PH domain containing 2 | FGD2 | 12.94 up | 2.60 down | AK024456 |
| Innate immune response | |||||
| 204924_at | toll-like receptor 2 | TLR2 | 5.94 down | 3.16 up | NM_003264 |
| 206271_at | toll-like receptor 3 | TLR3 | 55.81 down | 6.59 down | NM_003265 |
| 206206_at | CD180 molecule | CD180 | 23.53 down | 10.73 up | NM_005582 |
| 210166_at | toll-like receptor 5 | TLR5 | 27.49 down | 2.03 up | AF051151 |
| 215388_s_at | complement factor H | CFH | 561.66 down | 2.36 down | X56210 |
| 206157_at | pentraxin-related gene, rapidly induced by IL-1 beta | PTX3 | 5.17 down | 12.45 up | NM_002852 |
| 206693_at | interleukin 7 | IL7 | 3.06 down | 11.97 up | NM_000880 |
| 206727_at | complement component 9 | C9 | 6.43 up | 9.24 down | K02766 |
SSc, progressive systemic sclerosis