Table 2

Genes up-regulated by IFNs

GenBank accession no.Known ISGGene descriptionUntreated, intensityIFN-α IFN-β IFN-γ
IntensityFold increaseIntensityFold increaseIntensityFold increase
M24594 +ISG-56K16 * 588>29.42,492>124.6150
X02875 +2-5A synthetase (1.8 kb RNA)18 * 584>29.2505>25.2240
X57522 +RING429 * 80028602211,40749.2
J04164 +9-2762 * 1,43123.21,34921.95048.2
M33882 +MxA19 * 426>21.3625>31.3250
M13755 +IFN-induced 17/15-kDa protein1483,05420.72,40916.32681.8
U22970 +6-16−12 * 405>20.2433>21.7−70
U52513 +RIG-G19 * 358>17.9583>29.263>3.1
M62800 52-kD SS-A/Ro autoantigen−34 * 204>10.2131>6.6126>6.3
M876503+p48/ISGF3γ50 * 49910.14789.63927.9
U72882 +IFP35554608.43957.22584.7
Z14982 +LMP747 * 3898.33427.353511.4
AF008445 Phospholipid scramblase725948.2723102082.9
X02874 +2-5A synthetase (1.6 kb RNA)33 * 26282176.6430
L22342 +IFN-induced nuclear phosphoprotein4 * 156>7.8199>10.0119>6.0
M30818 +MxB3 * 114>5.7254>12.7360
M97936 +STAT1 (84 kDa)−31 * 111>5.6224>11.240>2.0
U43142 VEGF-C/VRP37 * 1985.315002647.1
M87434 +2-5A synthetase (71 kDa)10 * 104>5.2181>9.1250
Z35491 RAP46/Bag-1−2 * 99>5.0134>6.786>4.3
X74262 RbAp4824 * 11951757.31004.2
D49824 Human HLA-B null allele7939555276.73604.6
M63838 +IFI 168 * 98>4.9254>12.767>3.3
M97935 +STAT1 (91 kDa)522584.94468.51553
D50919 KIAA0129331554.71986760
M92642 Alpha-1 type XVI collagen43 * 1794.215301904.4
M55542 +GBP-212 * 82>4.1175>8.7147>7.3
X14454 +IRF-122 * 8841175.368231.1
M79463 +PML-270280427942503.6
X82200 +Staf50 mRNA461773.92746550
X66401 +LMP21083883.62502.35815.4
D28137 BST-222 * 863.91004.5321.4
X90846 Mixed lineage kinase 217 * 71>3.695>4.895>4.8
X04602 Interleukin BSF-221 * 763.6653.1653
U59321 DEAD-box protein p72−37 * 70>3.532>1.6−320
U04285 Lysosomal acid lipase (LIPA)17 * 69>3.581>4.0310
M79462 +PML-135 * 1213.513401243.6
M24470 Glucose-6-P dehydrogenase18 * 68>3.4710450
U89606 Pyridoxal kinase28 * 893.21686930
U83463 Scaffold protein Pbp113 * 64>3.264037>1.9
J04080 +Complement component C1r11 * 62>3.165>3.3103>5.2
U32849 Hou18 * 59>3.092>4.649>2.4
M20022 +MHC Class I15144535363.69126.1
X58536 +MHC Class I1203372.836332762.3
D28915 Hepatitis C-associated p4427 * 742.81284.8260
L40387 TRIP14117 * 3182.74163.51100
M22877 Somatic cytochrome c932532.73333.61631.7
U09825 Acid finger protein76 * 2002.62142.81532
X15949 +IRF-25 * 50>2.577>3.9420
U41515 DSS1671682.520131171.8
X83492 +Fas/Apo-16 * 48>2.451052>2.6
L14778 PPP3CA7 * 47>2.476−3.826>1.3
X61123 BTG1801922.415821832.3
J04611 Lupus p70 (Ku) autoantigen5241,2502.41,2532.41,0252
X75755 PR2641503642.43422.33262.2
D89052 Proton-ATPase-like protein4089122.27201.81,0052.5
U84573 PLOD258282.11622.8232.5
U10439 +dsRNA adenosine deaminase1523242.145033042
Z47087 Pol II elongation factor-like protein13426322011.52381.8
M94556 Mitochondrial SSB3095421.861925811.9
D32129 +HLA class-I (HLA-A26) heavy chain2524491.84611.85182.1
J00105 +β-2 microglobulin1,0191,7001.72,1502.11,2961.3
L25081 GTPase (rhoC)4326961.66521.59122.1
U20998 SRP91051571.52772.61371.3
X95648 eIF-2B α subunit901381.51671.91962.2
U07802 Tis11d10 * 28>1.439>2.030>1.5
U49837 LIM protein MLP−16 * 26>1.350>2.524>1.2
X16707 Fra-118 * 440214>10.7254>12.7
M21388 Unproductively rearranged IgM−71800193>9.7251>12.5
D38293 Clathrin-like protein28 * 2702468.9150
Y09836 3′ UTR of unknown protein11 * −190150>7.5350
U22431 Hypoxia-inducible factor-129 * 3302047.1500
M35663 +Pkr39 * 6802717330
X89416 Protein phosphatase 54910303056.21603.3
U88047 DRX−40 * 770107>5.41060
Z50194 PQ-rich protein4610302455.32104.5
U41766 MDC925 * 3001355.3190
U79291 Clone 2372116 * −2097>4.9200
U58046 p167211701004.7140
D79999 KIAA017732 * 2101404.4430
U41387 Gu protein535602264.3570
X63563 RNA polymerase II, 140 kDa561051.92304.1880
X70649 Clone 1042 of DEAD box family49 * 8101994.1500
D29640 KIAA0051263201034370
Z29064 AF-1p23 * 542.4883.9421.8
D79986 KIAA01644 * 30076>3.8190
U44378 DPC415 * 34>1.777>3.8160
J03473 Poly (ADP-ribose) polymerase6113002243.71462.4
D90070 PMA-responsive gene (APR)4 * 28>1.469>3.542>2.1
D63875 KIAA01551413070>3.5260
M85164 SAP-111 * 21067>3.432>1.6
U34605 +ISG-58K8 * 15066>3.3200
D14043 MGC-2455941.71823.3330
J04102 Ets-220 * 140673.3340
D16481 Mitochondrial 3-ketoacyl-CoA thiolase45 * 8601473.21032.3
Z69915 Clone ICRFp507L187623 * 280733.2280
X98260 M-phase phosphoprotein, mpp11−9 * 7061>3.1−60
M14660 +ISG-54K−62 * −5>1.061>3.1−4>1.0
M82882 Human cis-acting sequence2 * 21063>3.190
U05040 FUSE binding protein60 * 8401893.1630
M28249 Collagen receptor α-2 subunit31 * 280973.1220
X74039 uPA receptor22 * 520683.1490
M83216 Caldesmon3 * 9062>3.150
AB001106 Glia maturation factor6 * 14061>3.0210
U19252 Putative transmembrane protein11 * 24059>3.0300
M63896 TEF115 * 22059>3.090
X54326 Glutaminyl-tRNA synthetase49 * 3901503440
J03909 +IP-304 * 44>2.235>1.8239>12.0
U82987 Bcl-2 binding component 3 (bbc3)−27 * 46>2.380102>5.1
M83667 NF-IL6-beta24300592.51084.5
M24283 +ICAM-1−8 * −40−15086>4.3
U63824 RTEF-140 * 872.26401624
M21533 +MHC Class I2394371.85172.29383.9
X96752 l-3-hydroxyacyl-CoA dehydrogenase17 * 32050>2.577>3.8
U31628 IL15RA36 * 87011101353.8
X85237 Splicing factor SF3a12052 * 49010101923.7
X98172 MACH-123 * 532.3652.8743.2
X71874 MECL-11843121.72921.65633.1
X84213 +BAK577808201903.3
U18009 Human 17q21 clone LF11330 * 640520943.1
U65011 PRAME37 * 7206701113
L07633 +IFN-γ-inducible gene, I-51112504781.94111.67142.9
  • IFN-regulated genes identified by genechip array analysis were divided into three subgroups. The first subgroup was organized in decreasing order on the basis of fold increase in response to IFN-α, while the second and third were ordered similarly by decreasing fold increase in response to IFN-β and IFN-γ, respectively. A plus sign in the “Known ISG” column indicates that previous studies had identified the given gene as being regulated by IFNs. An asterisk beside an intensity value indicates that the given gene transcript was determined by the genechip software as nondetectable in that particular sample. A “greater than” sign (>) beside a fold increase value for a given gene indicates that this likely represents an underestimation since expression of the gene was determined as nondetectable in the untreated sample, and, consequently, the genechip software used a minimal value of 20 as a divisor to calculate the fold change for the IFN-treated sample. MHC, major histocompatibility complex; dsRNA, double-stranded RNA.