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Table 4 Enrichment of functional terms within Type-I response and Type-II response gene lists from rat strains/lines

From: Aryl hydrocarbon receptor (AHR)-regulated transcriptomic changes in rats sensitive or resistant to major dioxin toxicities

 

Type-I

Type-II

 

GO ID

Enrichment

FDR

Enrichment

FDR

Functional term

GO:0042175

2.20

1.00

2.68

0.00

nuclear envelope-endoplasmic reticulum network

GO:0005789

2.23

1.00

2.71

0.00

endoplasmic reticulum membrane

GO:0044432

2.06

1.00

2.54

0.00

endoplasmic reticulum part

GO:0044255

1.44

1.00

2.21

0.01

cellular lipid metabolic process

GO:0006629

1.28

1.00

2.05

0.01

lipid metabolic process

GO:0005783

1.63

1.00

1.99

0.01

endoplasmic reticulum

GO:0012505

1.07

1.00

1.84

0.02

endomembrane system

GO:0031090

0.55

1.00

1.57

0.02

organelle membrane

GO:0031301

NA

1.00

3.70

0.02

integral to organelle membrane

GO:0031300

NA

1.00

3.57

0.02

intrinsic to organelle membrane

GO:0030176

NA

1.00

4.46

0.02

integral to endoplasmic reticulum membrane

GO:0031227

NA

1.00

4.25

0.03

intrinsic to endoplasmic reticulum membrane

GO:0003824

0.86

0.48

0.82

0.05

catalytic activity

GO:0016491

2.69

0.02

1.94

0.03

oxidoreductase activity

GO:0016712

5.06

0.01

3.37

0.28

oxidoreductase activity acting on paired donors with incorporation or reduction of molecular oxygen reduced flavin or flavoprotein as one donor and incorporation of one atom of oxygen

GO:0020037

4.04

0.01

1.93

0.72

heme binding

GO:0046906

4.04

0.01

1.93

0.72

tetrapyrrole binding

GO:0004497

4.42

0.02

2.31

0.59

monooxygenase activity

  1. Gene Ontology (GO) analysis was used to determine if genes exhibiting Type-I (dioxin-responsive across both collectives) or Type-II (dioxin-responsive in only one collective) character were functionally coherent. Lists of Type-I and Type-II genes generated as described in the Results were tested for enrichment of each GO category represented on the RAE230A array. False-discovery rates (FDR) were calculated with 1000 permutations of the dataset using the High-Throughput GoMiner software, bolding highlights those terms with a FDR <5%. Enrichment values are expressed in log2-space (i.e. a value of 3.0 indicates an 8-fold enrichment). Note that GO:0016491 (oxidoreductase activity) is enriched in both the Type-I and Type-II gene lists.