Table 3 List of differentially expressed genes that best distinguish TNF-resistant cells (HPV18) from TNF-sensitive cells (PHK and HPV16), in normal culture conditions or upon treatment with TNF for 3 hours

ABCE1

ATP-binding cassette, sub-family E (OABP), member 1

0.592

0.001384

----

----

ACBD5

acyl-Coenzyme A binding domain containing 5

----

----

0.378

0.00086

ALDH3A2

encoding aldehyde dehydrogenase 3 family, member A2

1.623

0.00122

----

----

APG12L

APG12 autophagy 12-like (S. cerevisiae)

1.739

0.000924

----

----

APPBP1

amyloid beta precursor protein binding protein 1

0.540

0.000283

----

----

ARF4L

ADP-ribosylation factor 4-like

----

----

0.578

5.70E-05

BCLAF1

BCL2-associated transcription factor 1

0.611

0.000876

----

----

BOC

brother of CDO

----

----

2.337

6.00E-06

CCNA2

cyclin A2

0.577

0.000604

----

----

CDCA2

cell division cycle associated 2

----

----

0.539

7.20E-05

CDK2AP1

CDK2-associated protein 1

----

----

1.523

0.000148

CPSF3

cleavage and polyadenylation specific factor 3

0.586

0.000466

----

----

CYP1B1

cytochrome P450, family 1, subfamily B, polypeptide 1

0.499

0.001386

----

----

DEK

DEK oncogene

0.480

0.000278

----

----

FAM31C

family with sequence similarity 31, member C

----

----

2.548

0.000663

FLJ20105

hypothetical protein LOC54821

0.026

5.00E-06

0.029

2.00E-06

GALNAC4S-6ST

B cell RAG associated protein

1.827

0.000145

1.673

0.000215

H105E3

encoding NAD(P) dependent steroid dehydrogenase-like

----

----

0.569

6.80E-05

HLCS

holocarboxylase synthetase

----

----

1.551

0.00011

JPH3

junctophilin 3

0.154

0.000192

----

----

KIAA0795

kelch-like 18 (Drosophila)

0.857

0.001325

----

----

KIAA1023

IQ motif containing E

1.575

0.000723

----

----

KIF1B

kinesin family member 1B

----

----

0.570

0.000632

KLK7

encoding kallikrein 7 (chymotryptic, stratum corneum)

0.421

0.000416

0.374

2.30E-05

LCN2

lipocalin 2 (oncogene 24p3)

----

----

0.216

0.000686

LOC151242

protein phosphatase 1, regulatory (inhibitor)

1.928

0.000268

----

----

Lrp2bp

low density lipoprotein receptor-related protein binding protein

0.629

0.000574

----

----

MAPRE1

encoding microtubule-associated protein, RP/EB family, member 1

0.410

0.001068

0.503

4.20E-05

MBD2

methyl-CpG binding domain protein 2

0.680

0.001247

----

----

MGC35048

hypothetical protein MGC35048

----

----

0.499

0.000211

MRPS6

mitochondrial ribosomal protein S6

----

----

1.460

0.000161

MYO5B

acetyl-Coenzyme A acyltransferase 2

0.353

0.000104

0.292

4.10E-05

NMES1

normal mucosa of esophagus specific 1

0.324

0.000294

0.244

7.00E-06

NPR2

encoding natriuretic peptide receptor B/guanylate cyclase B

----

----

0.435

0.000234

ODC1

ornithine decarboxylase 1

1.660

0.000886

----

----

PI3

protease inhibitor 3, skin-derived (SKALP)

0.213

0.000274

0.207

1.80E-05

PROS1

protein S (alpha)

1.807

0.000633

----

----

PTP4A1

protein tyrosine phosphatase type IVA, member 1

0.478

0.000385

0.497

1.80E-05

RRAGA

Ras-related GTP binding A

----

----

1.510

0.000301

RUTBC3

RUN and TBC1 domain 3

0.518

0.000704

0.450

0.000131

S100P

S100 calcium binding protein P

0.101

0

0.102

0

SDCBP

syndecan binding protein (syntenin)

0.456

0.000395

----

----

SFRP1

secreted frizzled-related protein 1

----

----

0.502

5.10E-05

SLC35B3

solute carrier family 35, member B3

----

----

1.990

0.000304

STAF65 (gamma)

SPTF-associated factor 65 gamma

0.021

1.00E-06

0.028

0

THBS1

thrombospondin 1

----

----

2.712

0.000225

VMP1

likely ortholog of rat vacuole membrane protein 1

----

----

1.547

0.000899

YME1L1

YME1-like 1 (S. cerevisiae)

0.373

2.60E-05

0.333

5.00E-06