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