Table 1.
Top canonical pathways from IPA of CpG sites showing differential methylation and hydroxymethylation upon H. hepaticus-induced inflammation in Rag2−/−/Il10−/− mice.
| Gain of Both 5mC and 5hmC (Δ5mC > 0.1 and Δ5hmC > 0.1) | |
| Name | p-value |
| Agrin Interactions at Neuromuscular Junction | 1.28 × 10−2 |
| Axonal Guidance Signaling | 1.47 × 10−2 |
| Agranulocyte Adhesion and Diapedesis | 3.77 × 10−2 |
| Maturity Onset Diabetes of Young (MODY) Signaling | 4.53 × 10−2 |
| RhoGDI Signaling | 4.67 × 10−2 |
| De novo gain of 5hmC (−0.1 < Δ5mC < 0.1 and Δ5hmC > 0.1) | |
| Name | p-value |
| Corticotropin Releasing Hormone Signaling | 2.14 × 10−3 |
| Axonal Guidance Signaling | 2.38 × 10−3 |
| PI3K Signaling in B Lymphocytes | 2.92 × 10−3 |
| Sperm Motility | 5.15 × 10−3 |
| Hepatic Fibrosis Signaling Pathway | 6.28 × 10−3 |
| Switching from 5mC to 5hmC (Δ5mC < −0.1 and Δ5hmC > 0.1) | |
| Name | p-value |
| Cellular Effects of Sildenafil (Viagra) | 3.93 × 10−4 |
| Sperm Motility | 7.18 × 10−4 |
| Aryl Hydrocarbon Receptor Signaling | 7.98 × 10−4 |
| Thyroid Cancer Signaling | 2.82 × 10−3 |
| Glutathione Redox Reactions II | 4.01 × 10−3 |
| Loss of 5mC (Δ5mC < −0.1 and −0.1 < Δ5hmC < 0.1) | |
| Name | p-value |
| Thyroid Cancer Signaling | 1.11 × 10−4 |
| Synaptogenesis Signaling Pathway | 3.55 × 10−4 |
| Aryl Hydrocarbon Receptor Signaling | 7.81 × 10−4 |
| Corticotropin Releasing Hormone Signaling | 1.45 × 10−3 |
| Gαs Signaling | 2.13 × 10−3 |
| Loss of both 5mC and 5hmC (Δ5mC < −0.1 and Δ5hmC < −0.1) | |
| Name | p-value |
| Amyotrophic Lateral Sclerosis Signaling | 1.21 × 10−2 |
| Endocannabinoid Neuronal Synapse Pathway | 1.26 × 10−2 |
| Aryl Hydrocarbon Receptor Signaling | 3.21 × 10−2 |
| Endocannabinoid Cancer Inhibition Pathway | 3.28 × 10−2 |
| Breast Cancer Regulation by Stathmin1 | 3.69 × 10−2 |
| Loss of 5hmC (−0.1 <Δ5mC < 0.1 and Δ5hmC <−0.1) | |
| Name | p-value |
| Netrin Signaling | 2.05 × 10−4 |
| Synaptogenesis Signaling Pathway | 9.64 × 10−4 |
| Apelin Cardiac Fibroblast Signaling Pathway | 2.89 × 10−3 |
| Dopamine-DARPP32 Feedback in cAMP Signaling | 3.32 × 10−3 |
| Apelin Muscle Signaling Pathway | 3.62 × 10−3 |
| Switching from 5hmC to 5mC (Δ5mC > 0.1 and Δ5hmC < −0.1) | |
| Name | p-value |
| HOTAIR Regulatory Pathway | 1.28 × 10−4 |
| Wnt/β-catenin Signaling | 1.73 × 10−4 |
| Basal Cell Carcinoma Signaling | 2.26 × 10−4 |
| Endocannabinoid Neuronal Synapse Pathway | 5.67 × 10−4 |
| Transcriptional Regulatory Network in Embryonic Stem Cells | 1.24 × 10−3 |
| De novo gain of 5mC (Δ5mC > 0.1 and −0.1 < Δ5hmC< 0.1) | |
| Name | p-value |
| Axonal Guidance Signaling | 7.42 × 10−7 |
| Wnt/β-catenin Signaling | 4.29 × 10−5 |
| Role of NANOG in Mammalian Embryonic Stem Cell Pluripotency | 1.28 × 10−4 |
| Basal Cell Carcinoma Signaling | 3.33 × 10−4 |
| Osteoarthritis Pathway | 4.08 × 10−4 |