Table 2 Collation of results obtained on query of E.PAGE with genes differentially expressed in Type 1 Diabetes.

From: Environmental pathways affecting gene expression (E.PAGE) as an R package to predict gene–environment associations

Gene modules

Number of modules

Number of DE genes

\({p}_{adj}\)

Fold enrichment

Dyslipemia

1

13

1.46E−08

12.88

Olive oil induced gene expression

3

15

7.52E−08

8.58

Diet intake: Olive oil

2

14

1.14E−07

8.96

Inflammation

31

82

6.87E−07

1.85

Infection type: Acute

58

112

7.46E−07

1.61

Transcription regulation

11

33

8.00E−07

3.09

Interferons

15

53

1.66E−06

2.22

IL-12

4

37

5.02E−06

2.60

Th1-mediated response

4

37

5.02E−06

2.60

Parasite killing

4

37

5.02E−06

2.60

Non-smoker vs Smoker

16

46

3.21E−05

2.13

Type 2 Diabetes

5

16

5.99E−05

4.24

Early Disseminated

1

12

1.11E−04

5.35

Immune response

46

83

1.20E−04

1.59

Cigarette smoking

36

61

1.57E−04

1.77

Monocytes

10

34

2.21E−04

2.26

Airway epithelium

26

58

2.21E−04

1.78

Reactive oxygen species

12

58

2.69E−04

1.76

Mycobacterium tuberculosis

3

14

3.67E−04

3.97

Smoking Status: Current, Never

23

36

6.22E−04

2.08

Chronic obstructive pulmonary disease

16

30

6.36E−04

2.26

Polymorphonuclear leukocytes

10

55

1.08E−03

1.70

Anaplasma phagocytophilum

10

55

1.08E−03

1.70

Granulocytic anaplasmosis

10

55

1.08E−03

1.70

Metabolism

7

35

1.27E−03

2.01

Epithelial gene expression

16

36

1.27E−03

1.98

Lyme disease

2

15

1.27E−03

3.24

Borrelia burgdorferi

2

15

1.27E−03

3.24

PBMCs

22

58

1.27E−03

1.65

DE genes expressed in Obese, Lean

3

94

2.28E−03

1.39

Obese vs Lean

2

94

2.28E−03

1.39

Apoptosis

34

85

4.29E−03

1.40

Protein catabolism

2

10

5.26E−03

3.63

Plasmodium falciparum

1

14

5.26E−03

2.83

Malaria

1

14

5.26E−03

2.83

Blood monocytes

1

14

5.26E−03

2.83

Hepatocellular carcinoma

1

29

5.26E−03

1.95

HBV Infection

1

29

5.26E−03

1.95

Infection type: Chronic

29

66

5.60E−03

1.47

Infection induced gene expression

110

148

6.10E−03

1.21

Pack-years: (10–20)

5

14

6.83E−03

2.74

Diet intake: Dietary energy restriction

3

25

7.21E−03

2.01

DE genes expressed in Obese

15

33

7.27E−03

1.80

Idiopathic pulmonary fibrosis

1

13

7.33E−03

2.82

Cytokines

4

12

1.00E−02

2.83

Lung cancer

8

23

1.00E−02

2.01

Viral response

9

25

1.00E−02

1.94

Mannose metabolism

1

88

1.00E−02

1.34

Insulin resistance

7

89

1.00E−02

1.33

Adipose tissue gene expression

3

88

1.05E−02

1.33

DE genes expressed in Healthy

11

31

1.09E−02

1.77

Before vs After diet intake

7

19

1.23E−02

2.13

Blood immune cells

20

37

1.23E−02

1.65

Influenza A Infection

20

37

1.23E−02

1.65

E. coli infection

20

37

1.23E−02

1.65

Staphylococcus aureus infection

20

37

1.23E−02

1.65

Streptococcus pneumoniae infection

20

37

1.23E−02

1.65

T effector cells

2

11

1.39E−02

2.82

Helminth infection

2

11

1.39E−02

2.82

Macrophages

17

49

1.53E−02

1.50

Lipid metabolism

9

33

1.58E−02

1.68

Infection induced gene expression in mice

18

39

1.65E−02

1.58

Dendritic cells

20

73

1.65E−02

1.35

Vascularization

1

13

1.77E−02

2.42

Energy restriction associated gene expression

2

22

1.77E−02

1.90

Oxidative stress

11

24

1.89E−02

1.82

Hematopoiesis

2

13

1.95E−02

2.38

Vesicular traffic

1

12

2.10E−02

2.43

DE genes expressed in Insulin sensitive individuals

1

12

2.10E−02

2.43

Lipid induced gene expression

1

15

2.22E−02

2.15

Xenobiotic metabolism

4

13

2.66E−02

2.26

Bacterial infection

4

13

2.82E−02

2.24

Protein Metabolism

2

12

3.00E−02

2.31

Skeletal muscle gene expression

2

12

3.03E−02

2.30

Maternal cigarette smoking

2

13

3.03E−02

2.20

Mosquito-borne pathogen

7

21

3.58E−02

1.77

Signal Transduction

7

15

3.62E−02

2.01

Zika virus

8

21

4.12E−02

1.75

Pack-years: (20–30; Healthy smoker), (Above 40; Smoker with COPD)

4

12

4.50E−02

2.15

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