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. 2008 Jun 15;1(3):213–247.

Table 2.

Apoptosis-related genes differentially expressed in the SBR50 vs. SHAM comparison

SBR50 vs. Sham SBR50/IL-6 vs. SBR50 SBR50/IL/6/Gvs.SBR50/IL-6

mRNA Probeset Number Gene Name* Gene Symbol Fold P/Sham FDR Fold IL-6/p FDR Fold G/IL-6 FDR
GROUP IA GENES INCREASED IN SBR50 vs. SHAM AND DECREASED IN SBR50/IL-6 vs. SBR50
NM_012620 serine (or cysteine) peptidase inbitior, clade E, member 1 Serpine1 29.09 0.000 0.25 0.004 1.73 0.147
B1284218 solute carrier family 2 (faciliated glucose transporter), member 1 Slc2a1 20.29 0.000 0.26 0.002 1.72 0.079
NM_012580 heme oxygenase (decycling) 1 Hmoxl 19.97 0.002 0.13 0.020 1.20 0.846
M58040 transferrin receptor Tfrc 10.82 0.000 0.39 0.044 1.07 0.899
D64048 phosphatidylinositol 3-kinase, regulatory subunit, polypeptide 1 Pik3rl 6.17 0.003 0.21 0.014 0.64 0.433
U02315 neuregulin 1 Nrg1 5.08 0.002 0.43 0.062 0.70 0.428
NM_017334 cAMP responsive element modulator 3081 0.001 0.59 0.079 0.57 0.078
AI172056 myeloid cell leukemia sequence 1 Mcl1 3.43 0.001 0.46 0.019 0.87 0.669
NM_080902 hypoxia induced gene 1 Hig1 3032 0.001 0.36 0.005 1.09 0.773
AF279286 Bc12-like 1 Bc1211 3023 0.001 0.40 0.007 1.36 0.300
BI290699 phosphatidylinositol 3-kinase, catalytic, alpha polypeptide Pik3ca 3.18 0.000 0.31 0.002 0.90 0.692
NM_019142 protein kinase, AMP-activated, alpha 1 catalytic subunit Prkaa1 3.08 0.000 0.42 0.004 1.12 0.657
L062638 platelet derived growth factor, alpha Pdgfa 3.00 0.002 0.43 0.015 1.05 0.885
U69550 phospholipase D1 PlaD1 2.72 0.000 0.54 0.009 0.98 0.945
AB001382 secreted phosphoprotein 1 Sppl 2.67 0.013 0.45 0.048 2.08 0.077
NM_013052 tyrosine 3-monooxygenase/tyrptophan 5-monooxygenase activation protein, eta polypeptide Ywhah 2.42 0.002 0.66 0.095 2.95 0.001
NM_053843 Fc receptor, IgG, low affinity III /// Fc gamma receptor II beta Fcgr3 2.37 0.002 0.52 0.019 1.67 0.058
NM_017039 protein phosphate 2 (formerly 2A), catalytic subunit, alpha isoform Ppp2ca 2.33 0.001 0.59 0.018 1.76 0.015
BE113920 signal transducer and activator of transcription 3 Stat3 2.33 0.086 0.38 0.068 1.57 0.395
NM_019376 tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, gamma polypeptide Ywhag 2.30 0.000 0.57 0.004 1.35 0.059
NM_053887 mitogen activated protein kinase kinase kinase 1 Map3k1 2.24 0.036 0.38 0.022 1.19 0.686
NM_031140 Vimentin Vim 2.19 0.001 0.51 0.004 1.66 0.018
NM_031514 Janus kinase 2 Jak2 2.18 0.017 0.049 0.037 0.96 0.917
NM_031832 lectin, galactose binding, soluble 3 Lgals3 2.03 0.066 0.46 0.061 2.58 0.033
NM_019232 serum/glucocorticoid regulated kinase Sgk 2.00 0.080 0.47 0.074 0.94 0.902
AI409867 cystatin B CstB 1.89 0.002 0.55 0.007 1.41 0.080
NM_017255 purinergic receptor P2Y, G-protein coupled 2 P2ryl 1.82 0.006 0.49 0.005 1.46 0.082
NM_017022 integrin beta 1 (fibronectin receptor beta) Itgbl 1.82 0.001 0.61 0.006 1.15 0.351
NM_012886 tissue inhibitor of metalloproteinase 3 (Sorsby fundus dystrophy, pseudoinflammatory) Timp3 1.80 0.022 0.64 0.093 0.95 0.859
AI600237 eukaryotic translation elongation factor 1 epsilon 1 (predicted) Eefle1 1.79 0.008 0.67 0.061 0.72 0.135
AF228684 adenosine A2a receptor Adora2a 1.76 0.006 0.60 0.016 1.93 0.005
BE108192 G1 to S phase transition 1 Gspt1 1.74 0.000 0.70 0.004 1.03 0.772
NM_053619 complement component 5, receptor 1 C5rl 1.73 0.003 0.51 0.004 1.84 0.004
B1285434 tubulin, alpha 1 /// tubulin, alpha 6 /// similar to Tubulin alpha-2 chain (Alpha-tubulin 2) (predicted) Tubal 1.73 0.002 0.62 0.010 1.65 0.008
BM385544 presenilin 1 Psen1 1.67 0.008 0.65 0.029 1.80 0.008
BF281342 tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide Ywhaq 1.63 0.001 0.69 0.009 1.09 0.463
NM_021989 tissue inhibitor of metalloproteinase 2 Timp2 1.56 0.002 0.68 0.009 0.82 0.135
AI236590 myeloid differentiation primary response gene 88 Myd88 1.56 0.044 0.56 0.019 1.30 0.272
BM392321 Homeodomain interacting protein kinase 2 (predicted) Hipk2_predicted 1.53 0.026 0.69 0.068 0.88 0.534
BG379941 Harvey rat sarcoma viral (v-Ha-Ias) oncogene homolog HraS 1.52 0.003 0.73 0.025 1.28 0.079
BF417479 24-dehydrocholestrol reductase Dhcr24 1.51 0.015 0.69 0.038 0.63 0.018
NM_017141 polymerase (DNA directed), beta Polb 1.51 0.075 0.61 0.048 1.46 0.134
NM_031787 Homeodomain interacting protein kinase 3 Hipk3 1.50 0.093 0.52 0.019 0.59 0.060
AA893484 fibronectin 1 Fank1 1.49 0.028 0.64 0.022 0.74 0.116
AI172276 protein phosphatase 1, regulatory (inhibitor) subunit 2 Ppplr2 1.47 0.008 0.79 0.092 1.06 0.727
NM_053720 apoptosis antagonizing transcription factor Aatf 1.46 0.070 0.58 0.021 1.17 0.490
M37394 epidermal growth factor receptor Hgfr 1.44 0.092 0.52 0.012 0.52 0.014
BG666933 cystatin C CstC 1.40 0.002 0.77 0.014 0.71 0.004
BM389673 cofilin 1, non-muscle Cfl1 1.39 0.086 0.61 0.021 1.33 0.171
EE111972 transforming growth factor, beta receptor 1 Trfbr1 1.37 0.090 0.63 0.027 0.92 0.680
AF388527 Serpinel mRNA binding protein 1 Serbp1 1.31 0.016 0.83 0.096 1.11 0.365
NM_0131315 RAS p21 protein activator 1 Rasal 1.28 0.033 0.66 0.005 1.04 0.771
B1282863 Prohibition Phb 1.26 0.092 0.76 0.069 0.70 0.026
BI282281 heat shock 70kDa protein 9A (predicted) Hspa9a_predicted 1.22 0.012 0.73 0.004 0.75 0.004
AI103616 ras-related C3 botulimum toxin substrate 1 Rax1 1.21 0.029 0.74 0.007 1.31 0.012
NM_019371 EGL nine homolog 3 Egin3 17.30 0.000 0.07 0.000 0.81 0.493
AI602811 dual specificity phosphatase 6 Dusp6 15.48 0.000 0.44 0.012 1.27 0.418
BI303379 tumor necrosis factor receptor superfamily, member 12a Tnfrsf12a 9.82 0.002 0.29 0.064 2.08 0.277
NM_012591 interferon regulatory factor 1 Irf1 9.32 0.000 0.39 0.005 1.33 0.311
NM_133306 oxidized low density lipoprotein (lectin-like) receptor 1 Oldlr1 9.02 0.000 0.30 0.004 2.01 0.041
NM_024127 growth arrest and DNA-damage-inducible 45 alpha Gadd45a 6.25 0.001 0.50 0.098 1.95 0.130
NM_053420 BCL2/adenovirus E1B 19 kDa-interacting protein 3 Bnip3 6.07 0.000 0.19 0.002 0.88 0.734
AI232697 phosphatidylserine receptor Jmjd6 3.51 0.007 0.43 0.058 0.89 0.802
NM_021846 similar to MAP/microtubule affinity-regulating kinase 4 (MAP/microtubule affinity-regulating kinase like 1)(predicted) RGD1561096 3.46 0.001 0.43 0.018 0.86 0.662
B1287978 growth arrest and DNA-damage-inducible 45 beta Gadd45b 3.20 0.002 0.54 0.061 1.33 0.383
NM_021744 CD14 antigen Cd14 3.07 0.003 0.49 0.039 0.73 0.362
NM_012637 protein tyrosine phosphatase, non-receptor type 1 Ptpn1 3.02 0.007 0.35 0.015 0.47 0.069
B1275994 transglutaminase 2, C polypeptide Tgm2 2.98 0.000 0.45 0.004 2.99 0.000
NM_013026 syndecan 1 Sdc1 2.91 0.000 0.48 0.005 2.92 0.001
B1284739 LPS-induced TN factor Litaf 2.70 0.000 0.50 0.005 1.23 0.289
J04943 nucleophosmin 1 /// similar to Nucleophosmin (NPM) (Nucleolar phosphoprotein B23) (Numatrin)(Nucleolar protein NO348) Npm1 /// LOC300303 2.67 0.001 0.50 0.010 1.42 0.152
AB049572 sphingosine kinase 1 Sphk1 2.63 0.002 0.61 0.067 0.60 0.074
AI411788 protein phosphatase 2 (formerly 2A), regulatory subunit A (PR 65), beta isoform Ppp2f1b 2.63 0.000 0.39 0.002 1.55 0.049
B1289109 max binding protein (predicted) Mnt 2.44 0.004 0.51 0.027 1.40 0.258
X57764 endothelin receptor type B Ednrb 2.43 0.002 0.58 0.028 1.11 0.673
NM_134432 angiotensinogen (serpin peptidase inhibitor, clade A, member 8) Agt 2.11 0.002 0.43 0.004 1.31 0.233
AF136231 caspase 2 Casp2 2.04 0.009 0.38 0.004 0.86 0.592
BM387008 caspase 3, apoptosis related cysteine protease Casp3 2.00 0.001 0.54 0.004 1.46 0.037
DI3341 mitogen activated protein kinase kinase 1 Map2k1 1.96 0.007 0.62 0.055 1.81 0.026
NM_053974 eukaryotic translation initation factor 4E Eif4eb 1 1.92 0.003 0.64 0.028 1.12 0.584
AF066016 nuclear receptor subfamily 3, group C, member 1 Nr-3c1 1.85 0.006 0.59 0.022 1.10 0.680
BF283772 v-rel reticuloendotheliosis viral oncogene homolog A (avian) Rela 1.67 0.012 0.71 0.091 1.27 0.256
NM_013091 tumor necrosis factor receptor superfamily, member 1a Trfrsf1a 1.62 0.036 0.54 0.017 2.08 0.009
NM_017040 protein phosphatase 2 (formerly 2A), catalytic subunit, beta isoform Ppp2cb 1.60 0.002 0.64 0.005 0.98 0.899
BM386683 Stanniocalcin 1 Stc1 1.59 0.016 0.65 0.033 0.80 0.264
AI012221 chloride intracellular channel 1 Clic1 1.59 0.002 0.77 0.149 1.82 0.001
B1282898 BCL2-associated athanogene 5 Bag5 1.57 0.002 0.61 0.004 0.78 0.077
B1296393 programmed cell death 6 (predicted) Pdcd6 1.49 0.002 0.70 0.007 1.23 0.083
AI169001 antophagy-related 12 (yeast) Atg12 1.47 0.004 0.65 0.006 0.90 0.387
B1285751 cullin 3 (predicted) Cu13_predicted 1.46 0.012 0.62 0.006 0.87 0.373
NM_133307 protein kinase C, delta Prkcd 1.42 0.025 0.73 0.058 1.23 0.207
B1289418 CD38 antigen Cd38 1.42 0.091 0.68 0.088 1.19 0.433
NM_012696 kininogen 1 /// K-kininogen /// similar to alpha-1 major acute phase protein prepeptide Kng1 1.42 0.019 0.68 0.019 1.84 0.002
AA859665 Nuclear pore associated protein Npap60 1.40 0.012 0.69 0.012 0.89 0.401
NM_080887 thioredoxin-like 1 Txnll 1.39 0.002 0.74 0.007 1.24 0.034
AA848545 similar to programmed cell death 10 Pdcd10 1.38 0.063 0.61 0.016 1.52 0.033
NM_012839 cytochrome c, somatic Cycs 1.38 0.001 0.77 0.007 1.03 0.772
B1282255 ribosomal protein S5 Rps5 1.34 0.001 0.85 0.025 0.78 0.005
NM_022510 ribosomal protein L4 Rp14 1.33 0.031 0.73 0.025 0.75 0.044
AF411318 metallothionein 1a MtIa 1.29 0.058 0.62 0.006 0.90 0.456
NM_013065 protein phosphatase 1, catalytic subunit, beta isoform Ppp2cb 1.26 0.051 0.75 0.028 0.98 0.865
B1283681 eukaryotic translation initation factor 5A Eif5a 1.25 0.031 0.77 0.023 1.29 0.031
NM_080888 BCL2/adenovirus E1B 19 kDa-interacting protein 3-like Bnip31 1.19 0.077 0.73 0.010 0.60 0.001
BF281741 glioma tumor suppressor candidate region gene 2 GItscr2 1.18 0.067 0.84 0.068 0.93 0.461
BM389310 DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 (predicted) Ddx41_predicted 1.18 0.096 0.77 0.021 1.33 0.019
GROUP 1B GENES INCREASED IN SBR50 vs. SHAM AND UNCHANGED IN SBR50/IL-6 vs.SBR50
NM_012912 activating transcription factor 3 Atf3 92.25 0.000 1.36 0.435 0.45 0.054
NM_031970 heat shock 27kDa protein 1 Hspbl 11.79 0.006 4.12 0.100 0.44 0.360
NM_053565 suppressor of cytokine signaling 3 Socs3 10.14 0.000 0.51 0.118 1.80 0.177
NM_012603 myeloctomatosis viral oncogene homolog (avain) Myc 9.53 0.000 0.65 0.357 1.08 0.894
BM384926 DnaJ (Hsp40) homolog, subfamily B, member 1 (predicted) Dnajb1 9.09 0.005 2.79 0.155 0.26 0.081
NM_013154 CCAAT CCAAT/enhancer binding protein (C/EBP), delta Cebpd 6.32 0.000 0.60 0.151 1.38 0.387
AF080594 vascular endothelial growth factor A Vegfa 6.14 0.000 0.60 0.188 1.04 0.923
BG671521 heat shock protein 1, alpha Hspca 4.72 0.001 1.34 0.465 0.82 0.658
BI284349 myeloid differentiation primary response gene 116 Myd116 4.65 0.004 1.71 0.270 0.98 0.969
AF007789 plasminogen activator, urokinase receptor Plaur 4.28 0.001 0.62 0.151 1.17 0.662
NM_021836 Jun-B oncogene Junb 4.12 0.000 1.31 0.303 0.94 0.845
NM_022542 ras homolog gene family, member B Rhob 4.06 0.001 1.19 0.629 1.05 0.900
NM_012551 early growth response 1 Egrl 3.89 0.001 1.15 0.693 0.92 0.839
NM_058208 suppressor of cytokine signaling 2 Socs2 3.13 0.045 0.45 0.178 1.51 0.499
NM_012699 DnaJ (Hsp40) homolog, subfamily B, member 9 Dnajb9 2.53 0.019 0.55 0.132 0.55 0.147
NM_013085 plasminogen activator, urokinase Plau 2.23 0.085 0.81 0.690 0.87 0.791
NM_133416 B-cell leukemia/lymphoma 2 related protein A1 Bcl2a1 2.22 0.048 0.81 0.630 2.78 0.028
BM392366 platelet-activating factor acetylhtdrolase, isoform 1b, alpha2 subunit Pafah1b2 2.13 0.007 0.84 0.511 1.26 0.398
AI178012 retinoblastoma 1 Rb1 1.96 0.000 1.14 0.331 1.43 0.018
BI294137 Hexokinase 2 Hk2 1.89 0.006 0.71 0.119 1.00 0.985
AI008680 benzodiazepine receptor, peripheral Bzrp 1.86 0.003 0.85 0.383 2.82 0.000
NM_017034 proviral integration site 1 Pim1 1.85 0.012 0.88 0.586 1.09 0.736
NM_012904 annexi A1 Anxa 5 1.82 0.036 0.97 0.939 0.78
BE109605 zinc finger protein 162 Zfp162 1.74 0.016 0.75 0.199 0.95 0.837
NM_013151 plasminogen activator, tissue Plat 1.68 0.008 0.91 0.630 1.14 0.499
AI178772 prothymosin alpha Ptma 1.67 0.010 0.86 0.424 1.42 0.084
NM_012734 hexokinase 1 Hk1 1.67 0.012 0.73 0.116 0.86 0.459
NM_012523 CD53 antigen Cd53 1.66 0.013 0.73 0.117 1.14 0.517
AI237389 heat shock 90kDa protein 1, beta Hspcb 1.64 0.032 1.30 0.258 1.49 0.106
NM_022531 Desmin Des 1.60 0.032 0.82 0.380 1.53 0.076
BI296385 similar to chemokine (C-X-C motif) ligand 16 Cxcl16 1.59 0.017 0.82 0.312 1.65 0.024
AA945737 chemokine (C-X-C motif) receptor 4 Cxcr4 1.49 0.051 0.88 0.546 1.62 0.037
NM_012715 Adrenomedullin Adm 1.48 0.057 1.12 0.605 1.76 0.020
J04024 ATPase, Ca++ transporting, cardiac muscle, slow twitch 2 Atp2a2 1.47 0.035 0.99 0.988 1.03 0.900
NM_024359 hypoxia inducible factor 1, alpha subunit Hifla 1.47 0.008 0.86 0.299 1.19 0.235
M83297 protein phosphatase 2 (formerly 2A), regulatory subunit B (PR 52), alpha isoform Ppp2ca 1.37 0.080 0.81 0.275 1.06 0.778
BE116857 apoptotic chormatin condensation inducer 1 Acin1 1.30 0.089 0.92 0.605 1.14 0.421
AI411586 Sequestosome 1 Sqstm1 1.29 0.040 0.94 0.673 1.21 0.153
M25590 seminal vesicle protein 4 Svp4 1.28 0.072 0.92 0.601 0.93 0.625
U69550 phospholipase D1 Pldl 1.26 0.75 0.093 0.585 0.77 0.074
NM_019161 cadherin 22 Cdh22 1.06 0.048 0.97 0.215 0.96 0.207
NM_012641 regenerating islet-derived 1 Regl 1.02 0.06 1.00 0.825 0.96 0.018
BI288701 B-cell translocation gene 2, anti-proliferative Btg2 25.68 0.000 0.41 0.135 1.31 0.672
NM_024388 nuclear receptor subfamily 4, group A, member 1 Nr4a1 9042 0.002 2.22 0.220 0.98 0.977
NM_024134 DNA_damage inducible transcript 3 Ddit3 7.53 0.002 1.21 0.757 3.78 0.033
NM_1335578 dual specificity phosphatase 5 Dusp5 6.41 0.000 1.08 0.857 0.96 0.909
NM_013060 inhibitor of DNA binding 2 Id2 5.69 0.000 0.69 0.201 1.77 0.063
NM_031628 nuclear receptor subfamily 4, group A, member 3 Nr4a3 4.96 0.036 1.34 0.726 0.68 0.653
AI010427 cyclin-dependent kinase inhibitor 1A Cdkn1a 2.90 0.013 0.55 0.151 1.83 0.171
NM_053847 mitogen-activated protein kinase kinase kinase 8 Map3k8 2.89 0.008 0.59 0.170 1.52 0.289
NM_057138 CASP8 and FADD-like apoptosis regualtor Cfr 2.82 0.051 0.44 0.136 1.77 0.317
NM_053319 dynein light chain LC8-type 1 Dynll1 2.80 0.001 1.26 0.375 1.35 0.255
NM_053819 tissue inhibitor of metalloproteinase 1 Timp1 2.66 0.002 0.82 0.488 1.96 0.030
NM_194457 seven in absentia 2 Siah2 2.47 0.005 0.83 0.527 0.87 0.662
NM_012954 fos-like antigen 2 /// FBJ asteosarcoma oncogene B Fos12 2.42 0.008 1.02 0.974 1.49 0.223
NM_012966 heat shock 10 kDa protein 1 (chaperonin 10) Hspel 2.31 0.000 1.23 0.255 0.55 0.008
BG671549 superoxide dismutase 2, mitochondrial Sod2 2.27 0.077 0.57 0.238 3.76 0.018
U05989 PRKC, apoptosis. WTI, regulator Paur 2.06 0.003 1.35 0.165 0.99 0.976
NM_053957 amyloid beta (A4) precursor protein-binding, family B, member 3 Apbb3 2.03 0.014 0.69 0.184 1.24 0.463
NM_017180 pleckstrin homology-like domain, family A, member 1 Phidal 1.96 0.051 1.09 0.844 0.98 0.968
AB020367 tribbles homolog 3 (Drosophila) Trib3 1.91 0.036 0.60 0.118 1.87 0.069
NM_053394 Kruppel-like factor 5 Klf5 1.85 0.062 0.62 0.165 0.86 0.680
NM_012953 fos-like antigen 1 Fosl1 1.84 0.061 0.65 0.204 0.82 0.595
NM_017258 B-cell translocation gene 1, anti-proliferative Btg1 1.70 0.010 0.73 0.117 1.17 0.450
NM_022612 BCL2-like 11 (apoptosis faciliator) Bcl2111 1.55 0.020 0.75 0.129 0.83 0.353
AA892271 BCL2-like 13 (apoptosis faciliator) (predicted) Bcl2113 1.49 0.036 0.87 0.499 1.19 0.387
AA957342 peptidylprolyl isomerase D (cyclophilin D) Ppid 1.46 0.051 1.24 0.286 1.20 0.384
NM_053289 pancreatitis-associated protein Pap 1.43 0.100 0.70 0.120 1.11 0.672
NM_017006 glucose-6-phosphate dehydrogenase x-linked G6pdx 1.41 0.005 0.89 0.293 1.83 0.000
NM_012829 Cholecystokinin Cck 1.39 0.037 0.89 0.463 0.62 0.013
AF235993 Bc12-associated X protein Box 1.37 0.072 1017 0.399 2.76 0.000
NM_019282 gremlin 1 homolog cysteine knot superfamily (Xenopus laevis) Grem1 1.26 0.087 0.84 0.215 0.92 0.568
NM_131911 acidic nuclear phosphoprotein 32 family, member B Anp32b 1.23 0.025 0.86 0.117 1.18 0.095
B1280304 Bc12-associated athanogene 1 (predicted) Bag1 1.20 0.086 1.01 0.955 1.34 0.019
BF287444 glycogen synthase kinase 3 beta Gsk3b 1.18 0.067 0.92 0.349 1.04 0.669
NM_031038 Gonadotrophin releasing hormone receptor Gnrhr 1.15 0.050 0.89 0.113 0.97 0.736
AF081196 RAS guanyl releasing protein 1 Rasgrp1 1.10 0.018 0.94 0.140 0.94 0.154
NM_012650 sex hormone binding globulin Shbg 1.02 0.065 0.99 0.566 0.97 0.028
GROUP 2A GENES DECREASED IN SBR50 vs. SHAM AND INCREASED IN SBR50/IL-6 vs. SBR50
NM_052980 nuclear receptor subfamily 1, group I, member 2 Nrli2 0.09 0.000 1.38 0.027 1.39 0.031
NM_021745 nuclear receptor subfamily 1, group H, member 4 Nrlh4 0.40 0.002 2.99 0.003 1.35 0.251
NM_022407 aldehyde dehydrogenase family 1, member A1 Aldhlal 0.43 0.015 2.13 0.038 0.42 0.024
NM_012805 retinoid X receptor alpha Rxra 0.49 0.000 1.27 0.084 0.81 0.130
NM_012493 alpha-fetoprotein Afp 0.50 0.007 2.02 0.012 0.86 0.547
AI235465 steroid sensitive gene 1 Ssgl 0.50 0.012 2.07 0.015 0.53 0.030
NM_133400 apobec-1 complementation factor Acf 0.55 0.004 1.63 0.019 0.85 0.387
BM392373 CEA-related cell adhestion molecule 1 Ceacaml 0.58 0.003 1.58 0.013 0.69 0.038
BG377107 DnaJ (Hsp40) homolog, subfamily A, member 3 Dnaja3 0.60 0.000 1.44 0.005 0.93 0.482
NM_012931 breast cancer anti-estrogen resistance 1 Bcarl 0.60 0.018 1.65 0.027 1.25 0.310
NM_022614 inhibin beta C Inhbc 0.61 0.020 1.64 0.028 0.94 0.809
BF282337 integral membrane protein 2B Itm2b 0.63 0.000 1.27 0.007 1.13 0.117
BI276999 testis enhanced gene transcript Tegt 0.63 0.000 1.39 0.002 0.79 0.005
AY083159 Stam binding protein Stambp 0.63 0.009 1.56 0.017 1.43 0.049
BY275921 anterior pharynx defective la homolog (C. elegans) Aphla 0.64 0.002 1.38 0.021 2.05 0.000
AF347936 interlekin 11 receptor alpha chain 1 Ill1rals 0.65 0.009 1.60 0.011 1.27 0.154
AW672589 nuclear factor of kappa light chain gene enhancer in B-cells inhibitor, alpha Nfkbia 0.65 0.003 1.82 0.002 2.10 0.000
BI279735 Ubiquilin 1 Frapl 0.68 0.001 1.41 0.004 1.34 0.008
NM_017181 fumarylac etoacetate hydrolase Fah 0.69 0.002 1.29 0.002 0.75 0.019
NM_031546 Regucalcin Rgn 0.69 0.004 1.57 0.004 0.31 0.000
NM_022277 caspase 8 Casp8 0.70 0.013 1.32 0.058 1.92 0.001
AW523747 adhesion molecule with Ig like domain 2 Amigo2 0.72 0.045 1.54 0.019 1.20 0.131
BI274345 ataxin 10 Atxn10 0.73 0.008 1.22 0.079 0.90 0.387
BI295511 forkhead box O1A Foxola 0.73 0.020 1.39 0.022 0.88 0.353
AI009817 succinate dehydrogenase complex, subunit C, integral membrane protein Sdhc 0.73 0.034 1.37 0.043 1.02 0.925
AI011448 Notch gene homolog 2 (Drosophila) Notch2 0.74 0.088 1.59 0.019 1.18 0.384
BI285459 Nicastrin Ncstn 0.76 0.003 1.20 0.037 1.34 0.005
AB015946 tubulin, gamma 1 Tubgl 0.78 0.090 1.79 0.004 1.31 0.104
NM_022399 Calreticulin Calr 0.80 0.016 1.31 0.012 1.05 0.595
M15481 insulin-like growth factor 1 Igfl 0.83 0.069 1.36 0.014 0.51 0.000
NM_024352 Macrophage stimulating 1 (hepatocyte growth factor-like) Mstl 0.83 0.038 1.28 0.017 0.84 0.077
NM_053491 Plasminogen Parl 0.83 0.009 1.13 0.073 0.82 0.014
BI281756 Parkinson disease (auosomal recessive, early onset) 7 Park7 0.85 0.036 1.35 0.004 1.13 0.166
NM_133317 transducer of ErbB-2 1 Tobl 0.34 0.002 2.81 0.006 1.41 0.284
AF335281 STEAP family member 3 Steap3 0.41 0.002 1.62 0.066 0.69 0.170
AI412114 etoposide induced 2–4 Mma Ei24 0.46 0.000 2.14 0.002 0.98 0.917
NM_012870 retinoblastoma-like 2 Rb12 0.49 0.006 1.54 0.079 1.03 0.909
NM_012870 tumor necrosis factor receptor superfamily, member 11b (osteoprotegerin) Tnfrsf11b 0.50 0.004 1.99 0.007 1.23 0.360
NM_0530902 kynurenimase (L-kynurenime hydrolase) Kynu 0.52 0.003 1.73 0.014 0.47 0.003
AI169638 sphingosine-l-phosphate phosphatase 1 Sgppl 0.53 0.002 1.51 0.028 1.47 0.048
BM388758 excision repair cross-complementing rodent repair deficiency, complementation group 3 Ercc3 0.57 0.002 1.54 0.016 1.66 0.008
BF398331 estrogen receptor-binding fragment-associated gene 9 Ebag9 0.61 0.013 1.41 0.082 0.81 0.300
AB004454 presenilin 2 Psen 2 0.62 0.002 1.32 0.051 1.60 0.006
NM_019158 aquaporin 8 Aqp8 0.64 0.018 1.66 0.016 0.92 0.692
NM_057146 complement component 9 C9 0.64 0.002 1.29 0.042 1.36 0.022
AF275151 androgen receptor-related apoptosis-associated protein CBL27 Cb127 0.65 0.001 1.36 0.011 1.03 0.772
NM_017319 protein disulfide isomerase associated 3 Pdia3 0.66 0.001 1.67 0.002 1.22 0.062
NM_053907 deoxyribonuclease I-like 3 Dnase112 0.66 0.005 1.36 0.034 0.66 0.012
AF262320 programmed cell death 8 Pdcd8 0.69 0.000 1.19 0.009 0.92 0.164
BM391371 Goliath LOC652955 0.71 0.001 1.26 0.016 0.82 0.034
AA819870 complement component 8, beta polypeptide (mapped) C8b 0.79 0.018 1.28 0.024 0.80 0.038
AI409930 B-cell receptor-associated protein 31 Bcap31 0.81 0.007 1.28 0.006 1.08 0.333
GROUP 2B GENES DECREASED IN SBR50 vs. SHAM AND UNCHANGED IN SBR50/IL-6 vs. SBR50
NM_012842 epidemal growth factor Egfr 0.32 0.000 1.29 0.204 0.59 0.021
BM385790 Kruppel-like factor 2 (lung) (predicted) Klf2 0.40 0.006 1.10 0.789 1.33 0.384
NM_032612 signal transducer and activator of transcription 1 Stat1 0.45 0.075 2.20 0.101 6.09 0.003
NM_053923 phosphatidylinositol 3-kinase, C2 domain containing, gamma polypeptide Pic3c2g 0.50 0.014 1.15 0.630 0.30 0.002
NM_031541 scavenger receptor class B, member 1 Scarb1 0.52 0.002 1.29 0.151 0.77 0.152
NM_053523 homocysteine-inducible, endoplasmic reticulum stress-inducible, ubiquitin-like domain member 1 Herpud 1 0.53 0.017 1.42 0.186 0.47 0.015
NM_013063 poly (ADP-ribose) polymerase family, member 1 Parp12_predicted 0.56 0.011 0.87 0.539 1.02 0.951
NM_017206 solute carrier family 6 (neurotransmitter transporter, taurine), member 6 Slc6a6 0.56 0.078 0.81 0.539 1.60 0.185
AA799421 protein kinase C, epsilon Prkce 0.58 0.002 0.79 0.119 1.50 0.019
NM_022185 phosphatidylinositol 3-kinase, regulatory subunit, polypeptide 2 Pik3r2 0.59 0.056 1.18 0.575 1.33 0.348
AI177631 bifunctional apoptosis regualtor bflar 0.59 0.086 0.93 0.857 1.52 0.230
NM_017322 mitogen-activated protein kinase 9 Mapk9 0.60 0.011 1.15 0.468 1.24 0.289
NM_017094 growth hormone receptor Ghr 0.61 0.072 1.15 0.650 0.60 0.096
AI716502 spkingosine kinase 2 Sphk2 0.64 0.046 1.44 0.119 1.06 0.837
BG378230 mitochondrial ribosomal protein S30 (predicted) Mrps30 0.64 0.016 1.10 0.611 0.46 0.002
NM_019364 sec 1 family domain containing 1 Scfd1 0.65 0.025 1.28 0.189 1.05 0.798
BM385237 annexin A4 Anxa5 0.66 0.087 1.49 0.120 2.32 0.007
BI289543 zicn finger, MYND domain containing 11 Zmynd11 0.67 0.006 1.05 0.744 1.24 0.137
U68544 peptidylprolyl isomerase F (cyclophilin F) Ppif 0.67 0.003 1.07 0.587 0.88 0.348
NM_031053 mutL homolog 1 (E. coli) /// hypothetical gene supported by NM_031053 Mlhl 0.68 0.45 1038 0.103 1.30 0.200
X02904 glutathione-S-transferase, pi 1///glutathione S-transferase, pi 2 Gstpl 0.71 0.012 1.22 0.136 0.79 0.089
NM_053777 mitogen activated protein kinase 8 interacting protein Mapk8ip 0.71 0.033 1.29 0.117 0.86 0.387
BE110607 similar to apoptosis related protein APR-3; p18 (predicted) RGD1311605_predicted 0.72 0.072 1.29 0.170 0.69 0.070
NM_012803 protein C Sftpc 0.72 0.005 1.18 0.123 0.70 0.007
U69109 protein tyrosine kinase 2 beta Ptk2b 0.74 0.081 1.11 0.561 1.21 0.321
AA819804 Zinc finger protein 91 Zfp91 0.75 0.090 1.16 0.420 1.26 0.216
BG673589 paxillin Pxn 0.75 0.028 1.16 0.267 1.17 0.258
BF419646 retimoic acid receptor, beta Ram 0.75 0.086 1.14 D.468 2.37 0.001
NM_053739 beclin 1 (coiled-coil, myosin-like BCL2-interacting protein) Becn1 0.75 0.037 1.17 0.258 1.11 0.470
AI171615 chromosome segregation 1-like (S. cerevisiae) (predicted) Csell_predicted 0.78 0.062 1.26 0.104 1.45 0.019
NM_053864 valosin-containing protein Vcpip1 0.78 0.010 1.06 0.501 1.14 0.176
AIl70385 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2 Smarca2 0.80 0.089 1.21 0.170 0.99 0.923
NM_012660 eukaryotic translation elongation factor 1 alpha 2 Eefl2a 0.81 0.090 1.02 0.931 0.86 0.276
NM_133409 integrin linked kinase Ilk 0.83 0.087 1.07 0.582 1.27 0.054
AA800669 protein phosphatase 2 (formerly 2A), regulatory subunit A (PR 65), alpha isoform Ppp2f1a 0.88 0.091 1.00 0.979 1.23 0.024
NM_013149 aryl hydrocarbon receptor Ahr 0.32 0.001 1.21 0.502 0.92 0.776
NM_022180 hepatocyte nuclear factor 4, alpha Hrf4a 0.33 0.000 1.35 0.119 1.45 0.066
BI297236 Transformation related protein 53 inducible nuclear protein 1 Trp53inp1 0.49 0.053 1.47 0.317 1.06 0.894
BE1080508 Procollagen, type XVIII, alpha 1 Coll8a1 0.49 0.045 1.56 0.217 0.67 0.283
AB019366 poly (ADP-ribose) glycohydrolase Parg 0.52 0.004 1.12 0.611 1.49 0.072
NM_012498 aldo-keto reductase family 1,member B4 (aldose reductase) Akr1b4 053 0.003 1.33 0.138 1.10 0.660
NM_053307 methionine sulfoxide reductase A Msra 0.60 0.002 1.26 0.125 0.47 0.001
BF400782 protein kinase, DNA activated, catalytic polypeptide (predicted) Prkdc_predicted 0.60 0.005 1.06 0.733 0.89 0.506
NM_017079 CDldl antigen Cdldl 0.60 0.031 1.46 0.118 1.28 0.317
NM_053448 histone deacetylase 3 Hdac3 0.61 0.028 1.39 0.147 1.24 0.367
A1408078 BCL2-associated transcription factor 1 Bclaf1 0.64 0.028 0.93 0.748 0.72 0.130
BF283688 tumor necrosis factor ligand superfamily member 12 Tnflfl2 0.65 0.069 1.46 0.123 1.19 0.497
B1286396 PERP, TP53 apoptosis affector (predicted) Perp 0.69 0.042 1.13 0.540 0.51 0.005
BE107162 high mobility group box 1 Hmgb1 0.69 0.005 1.17 0.199 0.89 0.374
BF408447 programmed cell death 5 (predicted) Pdcd8 0.70 0.013 1.25 0.123 1.19 0.236
U06230 protein S (alpha) Prosl 0.70 0.019 1.14 0.405 0.70 0.034
A1227743 Fas-activated serine/threonine kinase Fastk 0.72 0.017 1.00 0.989 1.11 0.459
AIl76519 immediate early response 3 Ier3 0.73 0.051 1.32 0.110 1.16 0.396
NM_130406 Fas-associated factor 1 Fafl 0.74 0.061 1.16 0.389 1.51 0.030
BM389034 TNF receptor-associated protein 1 Trap 1 0.74 0.036 1.08 0.636 0.91 0.554
AA800180 thioredoxin 2 Txn2 0.75 0.029 1.10 0.465 1.18 0.230
D14592 mitogen activated protein kinase kinase 2 Map2k2 0.75 0.033 1.23 0.132 1.37 0.037
BG665132 mitochondrial carrier homolog 1 (C. elegans) Mtch1 0.77 0.022 1.08 0.537 1.17 0.207
BM390196 thioredoxin domain containig 5 (predicted) Txndc5_predicted 0.77 0.043 1.22 0.126 0.65 0.008
BF284481 SH3-domain GRB2-like B1 (endophilin) Sh3glbl 0.77 0.087 0.93 0.673 1.23 0.213
BM383722 NCK-assocaited protein 1 Nell1 0.80 0.070 1.06 0.646 0.95 0.719
NM_031978 proteasome (prosome, macropain) 26S subunit, non-ATPase, 1 Psmd1 0.81 0.093 1.14 0.336 1.33 0.052
AA946474 Calpastatin Cast 0.82 0.089 0.96 0.781 1.15 0.288
GROUP 3 GENES INCREASED IN SBR50 vs. SHAM AND INCREASED IN SBR50/IL-6 vs. SBR50
B1278231 heat shock 70kD protein 1B (mapped) Hspalb 51.80 0.002 7.75 0.072 0.06 0.026
NM_031971 heat shock 70kD protein 1A /// heat shock 70kD protein 1B (mapped) Hspala 45.41 0.002 7.32 0.061 0.08 0.026
AI236601 heat shock 105kDa/110kDa protein 1 Hsph1 8.49 0.006 3.36 0.097 0.43 0.264
B1288619 Jun oncogene Jun 5.64 0.001 2.68 0.021 0.51 0.102
NM_031327 cysteine rich protein 61 Cyr61 3.48 0.003 4.43 0.004 0.52 0.105
AA818262 angiopoietin-like 4 Angpt14 2.98 0.000 1.50 0.028 1.37 0.089
NM_012935 crystallin, alpha B Cryab 1.82 0.016 1.84 0.021 0.88 0.619
AF077354 heat shock protein 4 Hspa4 1.50 0.037 l.46 0.063 1.20 0.381
A1599423 growth arrest and DNA-damage-inducible 45 gamma Gadd45g 8.66 0.000 2.50 0.005 0.80 0.411
A1231792 Bc12-associated athanogene 3 Bag3 3.76 0.018 3.16 0.049 0.16 0.007
*

Genes listed in regular type are anti-apoptotic, while genes listed in italics are pro-apoptotic.

FDR: False discovery rate.