Table 3.
Functional annotation and clusters of genes that gain methylation in the genomes of institutionalized relative to comparison children
| Annotation Cluster | Term | Count | % | p | Fold Enrichment | Benjamini | FDR |
|---|---|---|---|---|---|---|---|
| Cluster 1 | Disulfide bond | 181 | 28.59 | 7.65E-19 | 1.90 | 4.26E-16 | 1.12E-15 |
| EScore: 13.96 | Secreted | 124 | 19.59 | 4.78E-18 | 2.25 | 1.33E-15 | 6.99E-15 |
| Disulfide bond | 170 | 26.86 | 5.35E-16 | 1.84 | 1.34E-12 | 9.77E-13 | |
| Signal | 185 | 29.23 | 2.65E-15 | 1.74 | 4.95E-13 | 3.90E-12 | |
| Signal peptide | 185 | 29.23 | 5.08E-15 | 1.73 | 6.17E-12 | 8.97E-12 | |
| Glycoprotein | 223 | 35.23 | 4.26E-14 | 1.58 | 5.92E-12 | 6.22E-11 | |
| GO:0005576~extracellular region | 139 | 21.96 | 4.53E-14 | 1.86 | 1.56E-11 | 6.18E-11 | |
| GO:0044421~extracellular region part | 82 | 12.95 | 1.29E-12 | 2.30 | 2.21E-10 | 1.75E-09 | |
| GO:0005615~extracellular space | 65 | 10.27 | 5.41E-12 | 2.55 | 6.20E-10 | 7.38E-09 | |
| Glycosylation site: N-linked (GlcNAc…) | 205 | 32.39 | 7.48E-11 | 1.51 | 4.52E-08 | 1.32E-07 | |
| Cluster 2 | GO:0006952~defense response | 50 | 7.90 | 1.08E-07 | 2.27 | 2.47E-04 | 1.88E-04 |
| EScore: 3.85 | GO:0006954~inflammatory response | 23 | 3.63 | 3.13E-03 | 1.98 | 8.35E-03 | 1.34E-03 |
| GO:0009611~response to wounding | 31 | 4.90 | 8.45E-03 | 1.63 | 8.85E-03 | 1.18E-02 | |
| Cluster 3 | IPR012351:Four-helical cytokine, core | 12 | 1.90 | 2.71E-07 | 7.71 | 2.64E-04 | 4.27E-04 |
| EScore: 3.78 | IPR000471:Interferon alpha/beta/delta | 8 | 1.26 | 7.03E-07 | 13.90 | 3.42E-04 | 1.11E-03 |
| SM00076:IFabd | 8 | 1.26 | 7.33E-07 | 13.74 | 1.60E-04 | 9.32E-04 | |
| PIRSF001934:interferon alpha | 8 | 1.26 | 1.30E-06 | 12.25 | 4.05E-04 | 1.74E-03 | |
| Cytokine | 21 | 3.32 | 1.99E-06 | 3.55 | 1.58E-04 | 2.91E-03 | |
| GO:0005125~cytokine activity | 23 | 3.63 | 2.18E-06 | 3.26 | 1.58E-03 | 3.30E-03 | |
| Antiviral | 7 | 1.11 | 2.81E-06 | 15.31 | 1.96E-04 | 4.11E-03 | |
| hsa05320:Autoimmune thyroid disease | 12 | 1.90 | 6.40E-06 | 5.54 | 4.35E-04 | 7.51E-03 | |
| IPR015589:Interferon alpha | 6 | 0.95 | 4.45E-05 | 13.63 | 1.43E-02 | 7.00E-02 | |
| hsa04060:Cytokine-cytokine receptor interaction | 26 | 4.11 | 9.19E-05 | 2.34 | 3.12E-03 | 1.08E-01 | |
| hsa04612:Antigen processing and presentation | 12 | 1.90 | 6.58E-04 | 3.40 | 1.48E-02 | 7.70E-01 | |
| Antiviral defense | 9 | 1.42 | 8.73E-04 | 4.45 | 3.19E-02 | 1.27E+00 | |
| hsa04622:RIG-I-like receptor signaling pathway | 10 | 1.58 | 2.77E-03 | 3.32 | 3.10E-02 | 3.21E+00 | |
| hsa04620:Toll-like receptor signaling pathway | 12 | 1.90 | 3.33E-03 | 2.80 | 3.43E-02 | 3.84E+00 | |
| hsa04630:Jak-STAT signaling pathway | 15 | 2.37 | 5.56E-03 | 2.28 | 4.93E-02 | 6.34E+00 |