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Table 1 Co‒occurrence annotations of GO and KEGG terms found by GeneCodis

From: Altered gene expression patterns of innate and adaptive immunity pathways in transgenic rainbow trout harboring Cecropin P1 transgene

Biological terms

Genes (I/R)1

P value2

Identifier

Spleen

   

Lysosome

45/106

7.68E-08

KEGG: 04142

Carbohydrate metabolic process

66/228

1.71E-04

GO: 0005975

Tuberculosis

15/25

2.04E-04

KEGG: 05152

Phagosome

  

KEGG: 04145

Phagosome

32/82

2.26E-04

KEGG: 04145

Cell adhesion

91/353

2.49E-04

GO: 0007155

Lysosome

10/13

3.69E-04

KEGG: 04142

Tuberculosis

  

KEGG: 05152

Lysosome

10/14

9.47E-04

KEGG: 04142

Phagosome

  

KEGG: 04145

Lysosome

9/12

1.20E-03

KEGG: 04142

Rheumatoid arthritis

  

KEGG: 05323

Lysosome

9/12

1.20E-03

KEGG: 04142

Tuberculosis

  

KEGG: 05152

Phagosome

  

KEGG: 04145

Amino sugar and nucleotide sugar metabolism

19/43

1.28E-03

KEGG: 00520

Liver

   

Glycolysis/Gluconeogenesis

17/43

7.76E-03

KEGG: 00010

Cell differentiation

71/322

9.78E-03

GO: 0030154

PPAR signaling pathway

17/47

1.98E-02

KEGG: 03320

Lipid metabolic process

9/17

2.63E-02

GO: 0006629

PPAR signaling pathway

  

KEGG: 03320

Kidney

   

Focal adhesion

29/47

2.72E-07

KEGG: 04510

ECM-receptor interaction

  

KEGG: 04512

Protein digestion and absorption

31/56

9.63E-07

KEGG: 04974

ECM-receptor interaction

33/61

9.76E-07

KEGG: 04512

PPAR signaling pathway

27/47

2.66E-06

KEGG: 03320

Protein digestion and absorption

12/13

7.68E-06

KEGG: 04974

Focal adhesion

  

KEGG: 04510

ECM-receptor interaction

  

KEGG: 04512

Focal adhesion

15/21

7.04E-05

KEGG: 04510

Amoebiasis

  

KEGG: 05146

ECM-receptor interaction

  

KEGG: 04512

Signal transduction

196/743

1.58E-04

GO: 0007165

Translation

71/216

2.34E-04

GO: 0006412

Focal adhesion

18/31

3.09E-04

KEGG: 04510

Cell adhesion

  

GO: 0007155

ECM-receptor interaction

  

KEGG: 04512

Protein digestion and absorption

9/10

4.16E-04

KEGG: 04974

Focal adhesion

  

KEGG: 04510

Amoebiasis

  

KEGG: 05146

ECM-receptor interaction

  

KEGG: 04512

  1. For spleen and kidney, only the first 10 most significant groups of terms were listed. 1I/R, Number of annotated genes in the input list/number of annotated genes in the reference list; 2P values were obtained through hypergeometric analysis and adjusted for multiple corrections using FDR.