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Table 1 PGE2-synthesizing enzymes and differentially expressed genes in selected significant GO categories (1-3 h).

From: Signal pathways JNK and NF-κB, identified by global gene expression profiling, are involved in regulation of TNFα-induced mPGES-1 and COX-2 expression in gingival fibroblasts

Symbol

Gene Name

M-valuea

Fold Change

p value

PGE 2 -synthesizing enzymes

PTGES

microsomal prostaglandin E synthase-1 (probe 1)

0.65

1.6

2.4 × 10-4

PTGES

microsomal prostaglandin E synthase-1 (probe 2)

0.39

1.3

0.09b

PTGES2

microsomal prostaglandin E synthase-2

-0.03

1.0

1.00b

PTGES3

cytosolic prostaglandin E synthase (probe 1)

0.03

1.0

1.00b

PTGES3

cytosolic prostaglandin E synthase (probe 2)

0.16

1.1

0.98b

PTGS2

cyclooxygenase-2

0.50

1.4

0.63b

GO category: Positive regulation of I-kappaB kinase/NF-kappaB cascade

APOL3

apolipoprotein L, 3

1.24

2.4

1.2 × 10-8

IKBKE

inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase epsilon

0.63

1.5

5.1 × 10-4

IKBKE

inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase epsilon

0.50

1.4

3.9 × 10-4

FLNA

filamin A, alpha (actin binding protein 280)

-0.23

-1.2

0.03

NUP62

nucleoporin 62 kDa

0.35

1.3

1.0 × 10-5

NUP62

nucleoporin 62 kDa

0.37

1.3

9.5 × 10-3

TICAM2

toll-like receptor adaptor molecule 2

0.36

1.3

1.6 × 10-3

CD40

CD40 molecule, TNF receptor superfamily member 5

0.40

1.3

3.6 × 10-3

TLR3

toll-like receptor 3

0.40

1.3

0.01

TFG

TRK-fused gene

0.27

1.2

0.04

F2R

coagulation factor II (thrombin) receptor

-0.22

-1.2

0.05

RIPK2

receptor-interacting serine-threonine kinase 2

1.14

2.2

1.7 × 10-6

TNFRSF10B

tumor necrosis factor receptor superfamily, member 10b

0.35

1.3

1.5 × 10-3

TNF

tumor necrosis factor (TNF superfamily, member 2)

-0.46

-1.4

2.1 × 10-3

SLC20A1

solute carrier family 20 (phosphate transporter), member 1

-1.17

-2.3

1.4 × 10-3

TRIM38

tripartite motif-containing 38

0.33

1.3

0.04

BIRC2

baculoviral IAP repeat-containing 2

0.62

1.5

4.8 × 10-3

GJA1

gap junction protein, alpha 1, 43 kDa

-0.64

-1.6

0.02

RELA

v-rel reticuloendotheliosis viral oncogene homolog A, nuclear factor of kappa light polypeptide gene enhancer in B-cells 3, p65 (avian)

0.47

1.4

1.6 × 10-4

GO category: Positive regulation of JNK cascade

EDA2R

ectodysplasin A2 receptor

-0.34

-1.3

1.3 × 10-3

TLR3

toll-like receptor 3

0.40

1.3

0.01

TAOK3

TAO kinase 3

-0.35

-1.3

0.01

TAOK3

TAO kinase 3

-0.28

-1.2

9.0 × 10-3

HIPK2

homeodomain interacting protein kinase 2

0.40

1.3

3.4 × 10-5

TNF

tumor necrosis factor (TNF superfamily, member 2)

-0.46

-1.4

2.1 × 10-3

  1. PGE2-synthesizing enzymes and differentially expressed genes in selected significant GO categories when comparing 1 h and 3 h of TNFα treatment. aPositive M-values indicate genes up-regulated by TNFα, and negative M-values indicate genes down-regulated by TNFα between the 1 h and 3 h time points. bNot differentially expressed in the comparison between time-points 1 h and 3 h. Differential expression is defined as p < 0.05.