Table 2. SEGs with expression changes of ≤4-fold–the number of genes in stably expressed pathways increases with relaxed selection criteria.
| Number of Genes in KEGG Pathways at Expression Change of ≤4-fold Calculated after Removal of N Highest and Lowest Expressed Samples | ||||||
|---|---|---|---|---|---|---|
| KEGG Pathway Term | N = 0 | N = 1 | N = 2 | N = 3 | N = 4 | Adjusted p-values |
| Proteasome | 8 | 16 | 19 | 20 | 24 | 3.5 x 10−7–10−21 |
| Ubiquitin mediated proteolysis | 8 | 13 | 15 | 15 | 18 | 8.7 x 10−3–6.4 x 10−6 |
| RNA transport | 8 | 11 | 12 | 15 | 16 | 1.2 x 10−3–3 x 10−4 |
| Aminoacyl-tRNA biosynthesis | 6 | 8 | 9 | 15 | 1.4 x 10−3–3 x 10−10 | |
| Protein processing in endoplasmic reticulum | 10 | 12 | 17 | 19 | 3 x 10−3–6 x 10−5 | |
| Spliceosome | 7 | 12 | 13 | 4 x 10−2–2 x 10−3 | ||
| Protein export | 5 | 6 | 8 | 3 x 10−3–2 x 10−5 | ||
| Legionellosis | 5 | 6 | 6 | 7 | >10−2 | |
| mTOR signaling pathway | 6 | 8 | 8 | >10−2 | ||
| Nucleotide excision repair | 5 | >10−2 | ||||
| Renal cell carcinoma | 6 | >10−2 | ||||
| AMPK signaling pathway | 10 | 11 | >10−2 | |||
| SNARE interactions in vesicular transport | 5 | 6 | >10−2 | |||
| Insulin signaling pathway | 10 | >10−2 | ||||
| Regulation of autophagy | 5 | >10−2 | ||||