Skip to main content

Table 1 KEGG pathway analysis showing up-regulated (A) and down-regulated (B) pathways

From: Comparative transcriptomics in human COPD reveals dysregulated genes uniquely expressed in ferrets

(A) Up-regulated genes—KEGG

Gene set

Description

Size

Overlap

Expect

ER

p-value

FDR

hsa04145

Phagosome

152

10

1.91

5.23

1.89E−05

0.004

hsa04142

Lysosome

123

9

1.55

5.81

2.18E−05

0.004

hsa04610

Complement and coagulation cascades

79

5

0.99

5.03

0.003070148

0.250

hsa05144

Malaria

49

4

0.62

6.49

0.003233764

0.250

hsa04611

Platelet activation

123

6

1.55

3.88

0.004416005

0.250

hsa04380

Osteoclast differentiation

128

6

1.61

3.72

0.005361306

0.250

hsa05323

Rheumatoid arthritis

90

5

1.13

4.41

0.005373572

0.250

hsa04210

Apoptosis

136

6

1.71

3.51

0.007171521

0.266

hsa04640

Hematopoietic cell lineage

97

5

1.22

4.10

0.007356998

0.266

hsa04060

Cytokine-cytokine receptor interaction

294

9

3.70

2.43

0.011381961

0.347

(B) Down-regulated genes—KEGG

Gene set

Description

Size

Overlap

Expect

ER

p-value

FDR

hsa04060

Cytokine-cytokine receptor interaction

294

8

1.30

6.16

3.08E−05

0.01

hsa04080

Neuroactive ligand-receptor interaction

277

6

1.22

4.90

0.001172172

0.19

hsa04930

Type II diabetes mellitus

46

2

0.20

9.84

0.017356504

1.00

hsa04672

Intestinal immune network for IgA production

49

2

0.22

9.24

0.01955958

1.00

hsa03320

PPAR signaling pathway

74

2

0.33

6.12

0.041960528

1.00

hsa04020

Calcium signaling pathway

183

3

0.81

3.71

0.046110736

1.00

hsa04062

Chemokine signaling pathway

189

3

0.84

3.59

0.049930188

1.00

hsa04350

TGF-beta signaling pathway

84

2

0.37

5.39

0.052704308

1.00

hsa04974

Protein digestion and absorption

90

2

0.40

5.03

0.059574237

1.00

hsa04750

Inflammatory mediator regulation of TRP channels

99

2

0.44

4.57

0.07042317

1.00

  1. Top ten gene sets annotated are displayed
  2. ER enrichment ratio; FDR False Discovery Rate