TABLE 1.

Cellular genes upregulated in K13-EC compared to Ctrl-EC

Gene symbolaUniGene IDInductionGene titleReference
CCL5Hs.514821929.3Chemokine (C-C motif) ligand 5 (RANTES)27
C15orf48Hs.112242424.6Chromosome 15 open reading frame 48
TRPA1Hs.137674418.8Transient receptor potential cation channel, subfamily A, member 1
TNCHs.143250319.6Tenascin C (hexabrachion)
CSF3Hs.2233252.5Colony-stimulating factor 3 (granulocyte)
TNFAIP6Hs.437322212.3Tumor necrosis factor, alpha-induced protein 6
DNERHs.234074186.1Delta-notch-like EGF repeat-containing transmembrane
CCL3Hs.514107162.0Chemokine (C-C motif) ligand 3
WT1Hs.591980115.4Wilms' tumor 1
SEMA3CHs.269109107.6Sema domain, immunoglobulin domain (Ig), short basic domain, secreted
WNT5AHs.561260102.5Wingless-type MMTV integration site family, member 5A
HSD11B1Hs.19504096.3Hydroxysteroid (11-beta) dehydrogenase 1
PRRX1Hs.63247592.4Paired related homeobox 1
VNN1Hs.1211485.6Vanin 1
SERPINB2Hs.51491381.6Serpin peptidase inhibitor, clade B (ovalbumin), member 2
PLA1AHs.43745178.8Phospholipase A1 member A
IL1BHs.12625675.6IL-1β
LUMHs.40647569.1Lumican
PAPPAHs.49492866.3Pregnancy-associated plasma protein A, pappalysin 1
RGS7Hs.13017160.1Regulator of G-protein signaling 7
CXCL5Hs.8971458.9Chemokine (C-X-C motif) ligand 5
CCL20Hs.7549858.1Chemokine (C-C motif) ligand 20 (MIP-3α)27
TNFRSF11BHs.8179156.9TNF receptor superfamily, member 11b (osteoprotegerin)
KYNUHs.47012651.6Kynureninase (l-kynurenine hydrolase)
IL1AHs.172248.8IL-1α
C12orf39Hs.13069248.8Chromosome 12 open reading frame 39
STC1Hs.2559047.2Stanniocalcin 1
EBI3Hs.50145245.3Epstein-Barr virus-induced gene 3
IFI30Hs.1462344.3Gamma interferon-inducible protein 30
CXCL10Hs.63258644.0Chemokine (C-X-C motif) ligand 10
CSF2Hs.134939.7Colony-stimulating factor 2 (granulocyte-macrophage)
TNFSF13BHs.52515739.1TNF (ligand) superfamily, member 13b
UBDHs.4453238.3Ubiquitin D
INDOHs.84035.3Indoleamine-pyrrole 2,3 dioxygenase
LOC129607Hs.715532.0Hypothetical protein LOC129607
IL-6Hs.51223430.9IL-6 (interferon, beta 2)27, 44
C1SHs.45835530.3Complement component 1, s subcomponent
MX1Hs.51730726.7Myxovirus (influenza virus) resistance 1, interferon-inducible protein p78
MGAT4CHs.12619525.8mannosyl (α-1,3-)-glycoprotein β-1,4-N-acetylglucosaminyltransferase, isozyme C
C3Hs.52905325.3Complement component 3
BCL2A1Hs.22781724.9BCL2-related protein A1
CX3CL1Hs.53166824.1Chemokine (C-X3-C motif) ligand 1
MRGPRX3Hs.38017723.6MAS-related GPR, member X3
TNIP3Hs.20820622.9TNFAIP3-interacting protein 3
TNFRSF9Hs.19341822.2TNF receptor superfamily, member 9
TLR2Hs.51903321.4Toll-like receptor 2
CCL8Hs.27138719.0Chemokine (C-C motif) ligand 8
NKX3-1Hs.5599918.4NK3 transcription factor related, locus 1 (Drosophila)
CXCL11Hs.63259218.3Chemokine (C-X-C motif) ligand 11
CXCL3Hs.8969017.9Chemokine (C-X-C motif) ligand 344
C6orf58Hs.22626817.9Chromosome 6 open reading frame 58
PELOHs.59375416.9Pelota homolog (Drosophila)
IL7RHs.59174216.7IL-7 receptor
BIRC3Hs.12779915.8Baculoviral IAP repeat-containing 3
MMP1Hs.8316914.9Matrix metallopeptidase 1 (interstitial collagenase)
CTSSHs.18130113.5Cathepsin S
GBP4Hs.40992513.5Guanylate binding protein 4
AMPD3Hs.50189013.3AMP deaminase (isoform E)
SERPINB4Hs.12303513.3Serpin peptidase inhibitor, clade B (ovalbumin), member 4
GFPT2Hs.3033212.8Glutamine-fructose-6-phosphate transaminase 2
HEY1Hs.23443412.6Hairy/enhancer-of-split related with YRPW motif 1
OAS2Hs.41433212.12′-5′-Oligoadenylate synthetase 2, 69/71 kDa
SLCO4A1Hs.23578212.1Solute carrier organic anion transporter family, member 4A1
GREM1Hs.4009812.0Gremlin 1, cysteine knot superfamily, homolog (Xenopus laevis)
C1orf24Hs.51866211.7Chromosome 1 open reading frame 24
IFI44LHs.38972411.3Interferon-induced protein 44-like
CA8Hs.49181311.3Carbonic anhydrase VIII
RSAD2Hs.1751811.2Radical S-adenosyl methionine domain containing 2
SELEHs.8954610.6Selectin E (endothelial adhesion molecule 1)
RELNHs.55837110.4Reelin
LOC387763Hs.53044310.1Hypothetical LOC387763
IL-8Hs.6249.8IL-827, 44
MSCHs.4426199.8Musculin (activated B-cell factor-1)
TRAF1Hs.5312519.6TNF receptor-associated factor 1
FLJ21986Hs.1896529.6Hypothetical protein FLJ21986
BICHs.3883139.1BIC transcript
CD74Hs.5912589.0CD74 molecule, major histocompatibility complex, class II invariant chain
TNFRSF19Hs.1491688.9TNF receptor superfamily, member 19
CPMHs.4845518.8Carboxypeptidase M
LAMC2Hs.5914848.6Laminin, gamma 2
KIAA1217Hs.4458858.6KIAA1217
ISG20Hs.4592658.2Interferon-stimulated exonuclease gene, 20 kDa
G0S2Hs.4321328.2G0/G1switch 2
EPSTI1Hs.5464678.0Epithelial stromal interaction 1 (breast)
TFPI2Hs.4382317.9Tissue factor pathway inhibitor 2
PSTPIP2Hs.5673847.8Proline-serine-threonine phosphatase-interacting protein 2
TNFAIP3Hs.5913387.7TNF-α-induced protein 3
PTGESHs.1466887.7Prostaglandin E synthase
MMP10Hs.22587.6Matrix metallopeptidase 10 (stromelysin 2)
PTGS2Hs.1963847.6Prostaglandin-endoperoxide synthase 2 (Cox-2)44
C1QTNF1Hs.2013987.4C1q and TNF-related protein 1
TNFAIP2Hs.5256077.1TNF-α-induced protein 2
OAS1Hs.5247607.12′,5′-Oligoadenylate synthetase 1, 40/46 kDa
FLJ20701Hs.4093526.9Hypothetical protein FLJ20701
NLF1Hs.2026566.8Nuclear-localized factor 1
CLEC4EHs.2365166.8C-type lectin domain family 4, member E
RGS7Hs.1301716.7Regulator of G-protein signaling 7
GCH1Hs.867246.5GTP cyclohydrolase 1 (dopa-responsive dystonia)
NFKBIZHs.3191716.5Nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta
ZC3H12AHs.4719186.3Zinc finger CCCH-type containing 12A
PRR16Hs.1574616.2Proline rich 16
AFF3Hs.4444146.2AF4/FMR2 family, member 3
SERPINE2Hs.384496.2Serpin peptidase inhibitor, clade E, member 2
PPM1HHs.4354796.2Protein phosphatase 1H (PP2C domain containing)
EDNRBHs.820026.1Endothelin receptor type B
CD69Hs.2088545.9CD69 molecule
PRRG4Hs.4716955.9Proline-rich Gla (G-carboxyglutamic acid) 4 (transmembrane)
ITGB8Hs.5921715.9Integrin, beta 8
VCAM1Hs.1092255.9Vascular cell adhesion molecule 127
RIPK2Hs.1037555.8Receptor-interacting serine-threonine kinase 2
ANK2Hs.6205575.8Ankyrin 2, neuronal
PAPLNHs.5099095.7Papilin, proteoglycan-like sulfated glycoprotein
PTHLHHs.5911595.7Parathyroid hormone-like hormone
SOD2Hs.4870465.6Superoxide dismutase 2, mitochondrial (MnSOD)
ICAM1Hs.5151265.5Intercellular adhesion molecule 1 (CD54), human rhinovirus receptor35
CXCL2Hs.5909215.5Chemokine (C-X-C motif) ligand 2 (GRO)27
MYO1BHs.4396205.5Myosin IB
RASSF5Hs.4975795.5Ras association (RalGDS/AF-6) domain family 5
ATP13A3Hs.5296095.4ATPase type 13A3
PSMB9Hs.1326825.4Proteasome subunit, beta type, 9 (large multifunctional peptidase 2)
BAMBIHs.5333365.4BMP and activin membrane-bound inhibitor homolog (X. laevis)
PDE5AHs.3706615.3Phosphodiesterase 5A, cGMP-specific
IL18R1Hs.4695215.2IL-18 receptor 1
LPXNHs.1254745.2Leupaxin
IRF1Hs.4360615.2Interferon regulatory factor 1
FSTHs.99145.1Follistatin
CXCL6Hs.1640215.1Chemokine (C-X-C motif) ligand 6 (granulocyte chemotactic protein 2)27
CD44Hs.5023285.1CD44 molecule (Indian blood group)
LYPD6Hs.219295.1LY6/PLAUR domain containing 6
IFI6Hs.5238475.1Interferon, alpha-inducible protein 6
IFIT3Hs.473385.0Interferon-induced protein with tetratricopeptide repeats 3
SLC25A37Hs.1225145.0Solute carrier family 25, member 37
IFI35Hs.6322585.0Interferon-induced protein 35
TLR1Hs.5750904.9Toll-like receptor 1
FXYD6Hs.5040314.9FXYD domain containing ion transport regulator 6
SLC7A2Hs.4485204.9Solute carrier family 7 (cationic amino acid transporter, y+ system), member 2
KIAA0146Hs.3810584.9KIAA0146
PPAP2BHs.4051564.9Phosphatidic acid phosphatase type 2B
OAS3Hs.5286344.82′-5′-Oligoadenylate synthetase 3, 100 kDa
TNFAIP8Hs.2719554.7TNF-α-induced protein 8
CYB5R2Hs.4143624.7Cytochrome b5 reductase 2
TAP1Hs.3520184.7Transporter 1, ATP-binding cassette, subfamily B (MDR/TAP)
C1RHs.5674974.7Complement component 1, r subcomponent
FSD1LHs.1369014.7Fibronectin type III and SPRY domain containing 1-like
C6orf155Hs.3683374.6Chromosome 6 open reading frame 155
IRAK2Hs.4492074.6IL-1 receptor-associated kinase 2
C9orf150Hs.4453564.6Chromosome 9 open reading frame 150
LOC54103Hs.1866494.6Hypothetical protein LOC54103
LOH11CR2AHs.1529444.5Loss of heterozygosity, 11, chromosomal region 2, gene A
MYLKHs.5566004.4Myosin, light polypeptide kinase
C8orf1Hs.4364454.4Chromosome 8 open reading frame 1
WTAPHs.4460914.3Wilms' tumor 1-associated protein
CTSKHs.6324664.3Cathepsin K (pycnodysostosis)
BIRC4BPHs.4419754.3XIAP-associated factor-1
HIST2H2AA3Hs.5304614.3Histone 2, H2aa3
SLC22A4Hs.3105914.3Solute carrier family 22 (organic cation transporter), member 4
DUSP16Hs.5365354.3Dual-specificity phosphatase 16
PDLIM4Hs.4243124.3PDZ and LIM domain 4
RP1-93H18.5Hs.3812204.3Hypothetical protein LOC441168
CXCL1Hs.7894.3Chemokine (C-X-C motif) ligand 1
ACSL1Hs.4066784.3Acyl-coenzyme A synthetase long-chain family member 1
TNIP1Hs.5438504.2TNFAIP3-interacting protein 1
GKHs.14664.2Glycerol kinase
SOCS1Hs.506404.2Suppressor of cytokine signaling 1
CDKN2BHs.729014.2Cyclin-dependent kinase inhibitor 2B (p15, inhibits CDK4)
ATF3Hs.4604.2Activating transcription factor 3
SQRDLHs.5112514.1Sulfide quinone reductase-like (yeast)
BMP2Hs.738534.1Bone morphogenetic protein 2
NRG1Hs.4539514.1Neuregulin 1
CSF1Hs.5914024.1Colony-stimulating factor 1 (macrophage)
CLIC2Hs.6328374.1Chloride intracellular channel 2
SART2Hs.4862924.0Squamous cell carcinoma antigen recognized by T cells 2
C13orf31Hs.2105864.0Chromosome 13 open reading frame 31
  • a Genes with fourfold and higher upregulation are included. Genes indicated in boldface have also been shown by others (27, 35, 44) to be upregulated by vFLIP/K13. Genes in italics are assigned to the statistically most overrepresented gene ontology terms: immune system process (P value, 5.88 × 10−36), defense response (P value, 6.13 × 10−22), inflammatory response (P value, 2.87 × 10−19), and cytokine activity (P value, 8.56 × 10−19). Underlined genes are assigned to the gene ontology term apoptosis (P value, 1.67 × 10−06). Analysis was done with GOstat (4). MnSOD (SOD2) is set off by spaces.