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Table 1 Significantly Disturbed Pathways of F3/LPS-treated THP-1 Cells

From: Ganoderma lucidum polysaccharides in human monocytic leukemia cells: from gene expression to network construction

Pathway

Identifieda

p-value

q-value

F3 treatment after 6 hr

   

Induction of apoptosis through DR3 and DR4/5 Death Receptors

9/32 (37)

0

0.0044

Erythropoietin mediated neuroprotection through NF-kB

5/11 (17)

0.0002

0.0110

F3 treatment after 24 hr

   

Inhibition of Matrix Metalloproteinases

3/9 (15)

0.0146

0.0265

Induction of apoptosis through DR3 and DR4/5 Death Receptors

6/32 (37)

0.0116

0.0265

IFN alpha signaling pathway

3/9 (25)

0.0146

0.0265

Chaperones modulate interferon Signaling Pathway

4/16 (34)

0.0140

0.0265

NF-kB Signaling Pathway

5/23 (49)

0.0112

0.0265

TNFR2 Signaling Pathway

5/18 (32)

0.0036

0.0265

CD40L Signaling Pathway

4/15 (27)

0.0110

0.0265

Bone Remodelling

4/14 (19)

0.0085

0.0265

B Lymphocyte Cell Surface Molecules

3/9 (10)

0.0146

0.0265

Double Stranded RNA Induced Gene Expression

3/10 (14)

0.0199

0.0321

Antisense Pathway

2/4 (13)

0.0208

0.0321

The information-processing pathway at the IFN-beta enhancer

4/15 (27)

0.0110

0.0440

LPS treatment after 24 hr

   

B Lymphocyte Cell Surface Molecules

5/9 (10)

0.0006

0.0122

Erythropoietin mediated neuroprotection through NF-kB

5/11 (17)

0.0019

0.0191

Induction of apoptosis through DR3 and DR4/5 Death Receptors

8/32 (37)

0.0071

0.0356

IFN alpha signaling pathway

4/9 (25)

0.0063

0.0356

NFkB activation by Nontypeable Hemophilus influenzae

6/24 (43)

0.0194

0.0481

Toll-Like Receptor Pathway

7/34 (45)

0.0331

0.0481

TNFR2 Signaling Pathway

5/18 (32)

0.0207

0.0481

CD40L Signaling Pathway

4/15 (27)

0.0438

0.0481

IL-10 Anti-inflammatory Signaling Pathway

4/13 (17)

0.0266

0.0481

HIV-I Nef: negative effector of Fas and TNF

10/57 (77)

0.0338

0.0481

Neuropeptides VIP and PACAP inhibit the apoptosis of activated T cells

6/26 (43)

0.0283

0.0481

HIV-1 defeats host-mediated resistance by CEM15

2/3 (5)

0.0243

0.0481

Bone Remodelling

4/14 (19)

0.0346

0.0481

Neutrophil and Its Surface Molecules

3/8 (12)

0.0313

0.0481

Adhesion Molecules on Lymphocyte

3/9 (10)

0.0438

0.0481

GATA3 participate in activating the Th2 cytokine genes expression

5/16 (25)

0.0123

0.0481

Oxidative reactions of the pentose phosphate pathway

2/4 (4)

0.0457

0.0481

NF-kB Signaling Pathway

5/23 (49)

0.0558

0.0487

Chaperones modulate interferon Signaling Pathway

4/16 (34)

0.0543

0.0487

Double Stranded RNA Induced Gene Expression

3/10 (14)

0.0584

0.0487

Mechanism of Gene Regulation by Peroxisome Proliferators via PPARa(alpha)

9/54 (64)

0.0574

0.0487

FAS signaling pathway (CD95)

6/30 (34)

0.0536

0.0487

The information-processing pathway at the IFN-beta enhancer

4/15 (27)

0.0438

0.0487

  1. a The ratio between matching genes and total genes in this pathway