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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.