Table 2B.
Top four pathways identified by WebGestalt Pathway Analysis.
| tx-j vs tx-j + maternal choline supplementation | ||||
|---|---|---|---|---|
| Pathway | tx-j Mean RPKM | tx-j + maternal choline Mean RPKM | Percent Difference (tx-j relative to tx-j + maternal choline) | |
| Oxidative phosphorylation (KEGG Pathway 00190) | ||||
| C = 147; O = 9; E = 1.15; R = 7.85; rawP = 2.61e-06; adjP = 1.48e-05 | ||||
| Atp6v1a | ATPase, H+ transporting, lysosomal V1 subunit A | 18.5 | 16.1 | −13% |
| Uqcrfs1 | ubiquinol-cytochrome c reductase, Rieske iron-sulfur polypeptide 1 | 77.4 | 66.3 | −14% |
| Ndufb6 | NADH dehydrogenase (ubiquinone) 1 β subcomplex, 6 | 34.2 | 28.6 | −16% |
| Atp6v1b2 | ATPase, H+ transporting, lysosomal V1 subunit B2 | 35.2 | 29.4 | −17% |
| Cox17 | cytochrome c oxidase, subunit XVII assembly protein homolog (yeast) | 5.0 | 4.2 | −17% |
| Atp6v1h | ATPase, H+ transporting, lysosomal V1 subunit H | 15.9 | 13.1 | −18% |
| Atp5g3 | ATP synthase, H+ transporting, mitochondrial F0 complex, subunit C3 (subunit 9) | 237.1 | 189.9 | −20% |
| Cox5a | cytochrome c oxidase, subunit Va | 88.2 | 69.8 | −21% |
| Cox11 | COX11 homolog, cytochrome c oxidase assembly protein (yeast) | 5.5 | 3.8 | −30% |
| Alzheimer's disease (KEGG Pathway 05010) | ||||
| C = 188; O = 10; E = 1.47; R = 6.82; rawP = 2.60e-06; adjP = 1.48e-05 | ||||
| Ern1 | endoplasmic reticulum (ER) to nucleus signalling 1 | 5.5 | 6.8 | 24% |
| Uqcrfs1 | ubiquinol-cytochrome c reductase, Rieske iron-sulfur polypeptide 1 | 77.4 | 66.3 | −14% |
| Casp9 | caspase 9 | 6.4 | 5.4 | −15% |
| Ndufb6 | NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 6 | 34.2 | 28.6 | −16% |
| Itpr1 | inositol 1,4,5-trisphosphate receptor 1 | 3.7 | 3.1 | −17% |
| Aph1a | anterior pharynx defective 1a homolog (C. elegans) | 13.6 | 11.0 | −19% |
| Bace2 | beta-site APP-cleaving enzyme 2 | 1.2 | 1.0 | −19% |
| Atp5g3 | ATP synthase, H+ transporting, mitochondrial F0 complex, subunit C3 (subunit 9) | 237.1 | 189.9 | −20% |
| Casp7 | caspase 7 | 6.6 | 5.2 | −21% |
| Cox5a | cytochrome c oxidase, subunit Va | 88.2 | 69.8 | −21% |
| p53 signaling pathway ID:04115 | ||||
| C = 70; O = 6; E = 0.55; R = 11.00; rawP = 1.87e-05; adjP = 7.95e-05 | ||||
| Steap3 | STEAP family member 3 | 13.4 | 11.5 | −14% |
| Casp9 | caspase 9 | 6.4 | 5.4 | −15% |
| Rchy1 | ring finger and CHY zinc finger domain containing 1 | 14.9 | 12.0 | −20% |
| Perp | PERP, TP53 apoptosis effector | 15.8 | 12.5 | −21% |
| Igf1 | insulin-like growth factor 1 | 3.0 | 2.3 | −24% |
| Sesn3 | sestrin 3 | 3.2 | 2.4 | −25% |
| Proteasome (KEGG Pathway 03050) | ||||
| C = 45; O = 5; E = 0.35; R = 14.25; rawP = 2.66e-05; adjP = 9.04e-05 | ||||
| Pomp | proteasome maturation protein | 74.6 | 63.6 | −15% |
| Psmf1 | proteasome inhibitor subunit 1 | 7.2 | 6.1 | −15% |
| Psmc5 | protease 26S subunit, ATPase 5 | 33.3 | 26.7 | −20% |
| Psmd13 | proteasome 26S subunit, non-ATPase, 13 | 19.6 | 15.5 | −21% |
| Psmd2 | proteasome 26S subunit, non-ATPase, 2 | 49.3 | 38.5 | −22% |
| Number of reference genes in the category (C) | ||||
| Number of differentially expressed genes in reference category (O) | ||||
| Expected number in the category (E) | ||||
| Ratio of enrichment (F) | ||||
| P-value from hypergeometric test (rawP) | ||||
| P-value adjusted by the multiple test adjustment (adjP) | ||||
| *Percent difference = [(tx-j - tx-j+maternal choline)/tx-j]*100 | ||||
RPKM: Reads per kilobase of transcript per million mapped reads