Table 2

Pathway analysis using Tian's method identified ERα agonist-regulated pathways related to immunity/inflammation.

rank

pathway

set size

percent up

average (NTk, NEk)


1

graft-versus-host disease

67

9

7.2

2

autoimmune thyroid disease

73

8

7.5

3

allograft rejection

68

9

7.8

4

cell adhesion molecules

189

18

8.0

5

retinol metabolism

64

11

9.5

6

type I diabetes mellitus

77

16

11.2

7

hematopoietic cell lineage

101

18

13.5

8

neuroactive ligand-receptor interaction

335

16

13.8

9

pantothenate and CoA biosynthesis

11

27

14.5

10

C and coagulation cascades

92

13

14.5

11

androgen and estrogen metabolism

33

15

16.5

12

Parkinson's disease

139

69

16.5

13

cytokine-cytokine receptor interaction

210

23

20.5

14

systemic lupus erythematosus

92

22

22.2

15

caffeine metabolism

10

10

25.5

16

metabolism of xenobiotics by cytochrome P450

48

15

26.2

17

ECM-receptor interaction

101

24

26.2

18

Jak-STAT signaling pathway

172

28

27.2

19

drug metabolism - other enzymes

38

24

27.5

20

basal cell carcinoma

68

21

29.0


The analysis identified eight immune-related KEGG pathways (in bold) regulated by selective ERα agonist 16α-LE2. In the analysis, KEGG pathways were used as collaborator gene sets. Using the Tian's method [31], the relationship between gene sets and treatment is quantified by two statistics (Tk and Ek) formulating the two hypotheses: i) the gene in a gene set shows the same pattern of associations with the treatment compared with the rest of the genes, ii) the gene set does not contain any genes whose expression levels are associated with the treatment, respectively. KEGG pathways were ranked by the mean of normalized statistics (NTk and NEk). Set size is the number of genes, percent up is the number of up-regulated genes in the KEGG pathway. C, complement.

Sárvári et al. Journal of Neuroinflammation 2011 8:82   doi:10.1186/1742-2094-8-82

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