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Table 3 IPA summary of associated networks, molecular and cellular functions, diseases and disorders and canonical pathways for the 126 genes mapped to significantly differentiated genomic regions

From: Inter-chromosomal variation in the pattern of human population genetic structure

 

IPA categories

Statistical measures

Associated gene(s)

No

Top networks

Network score*

No. of candidate

genes

1

Cancer, cell death, dermatological diseases and conditions

33

19

2

Carbohydrate metabolism, dermatological diseases and conditions, lipid metabolism

24

14

3

Post-translational modification, embryonic development, tissue development

24

13

4

Inflammatory response, immunological disease, carbohydrate metabolism

20

12

5

Cell cycle, hair and skin development and function, nervous system development and function

19

12

 

Molecular and cellular functions

p value +

No. of candidate

genes

1

Cell death

2.55E-04 - 3.60E-02

19

2

Cell-to-cell signalling and interaction

6.33E-04 - 3.25E-02

6

3

Cellular assembly and organisation

6.33E-04 - 3.36E-02

18

4

Cellular compromise

6.33E-04 - 3.25E-02

8

5

Gene expression

1.50E-03 - 3.25E-02

7

 

Associated disease and disorders

p value

No. of candidate

genes

1

Inflammatory disease

1.43E-07 - 3.25E-02

47

2

Gastrointestinal disease

1.22E-06 - 3.39E-02

29

3

Genetic disorder

1.22E-06 - 3.25E-02

69

4

Endocrine system disorders

1.72E-05 - 3.25E-02

35

5

Metabolic disease

1.72E-05 - 1.31E-02

39

 

Top canonical pathways

p value

No. of candidate

genes

1

Androgen and oestrogen metabolism

2.15E-02

3

2

Neuroprotective role of THOP1 in Alzheimer's disease

2.85E-02

2

3

Alanine and aspartate metabolism

3.39E-02

2

4

Retinol metabolism

3.39E-02

2

5

Pentose and glucuronate interconversions

4.76E-02

2

 

Physiological system development and function

p value

No. of candidate

genes

1

Hair and skin development and function

6.26E-05 - 3.25E-02

9

2

Nervous system development and function

7.22E-04 - 3.36E-02

15

3

Connective tissue development and function

1.17E-03 - 3.25E-02

6

4

Skeletal and muscular system development and function

1.17E-03 - 3.25E-02

11

5

Tissue development

1.17E-03 - 3.25E-02

14

  1. *Networks with scores ≥3 have a 99.9 per cent confidence of not being generated randomly.
  2. +The IPA computes p values of statistically significant findings by comparing the number of molecules of interest relative to the total number of occurrences of these molecules in all functional/pathway annotations stored in the Ingenuity Pathways Knowledge Base (Fisher's exact test with p value adjusted using the Benjamini-Hochberg multiple testing correction).
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Human Genomics

ISSN: 1479-7364