Table 2.
Pathways analysis for joint gender, female, and male Smokers vs Never-smokers. Protein details are provided in Additional file 1: Tables S1, S2, S3 and S4
| Joint gender Smokers vs Never-smokers | Female Smokers vs Never-smokers | Male Smokers vs Never-smokers | |||||||
|---|---|---|---|---|---|---|---|---|---|
| Pathway (No. of proteins in pathway) | Hitsa | p-value | pFDR | Hits | p-value | pFDR | Hits | p-value | pFDR |
| Ribosome (180) | 58(56↓) | 3.4 × 10−34 | 7.1 × 10−32 | 53b(51↓) | 1.2 × 10−34 | 2.6 × 10−32 | 37(36↓) | 3.7 × 10−26 | 6.7 × 10−24 |
| Oxidative phosphorylation (187) | 32(31↑) | 9.0 × 10−13 | 9.5 × 10−11 | 17(16↑) | 2.1 × 10−5 | 6.3 × 10−4 | 22(21↑) | 1.9 × 10−11 | 1.7 × 10−9 |
| Lysosome (177) | 29(22↑) | 2.6 × 10−11 | 1.9 × 10−9 | 24(18↑) | 4.4 × 10−10 | 4.7 × 10−8 | 20(13↑) | 1.7 × 10−9 | 9.9 × 10−8 |
| Citrate cycle (TCA cycle) (43) | 15(15↑) | 2.9 × 10−10 | 1.5 × 10−8 | 12(12↑) | 1.1 × 10−8 | 8.1 × 10−7 | 11(11↑) | 2.2 × 10−8 | 1.0 × 10−8 |
| Valine, leucine and isoleucine degradation (64) | 14(13↑) | 1.7 × 10−7 | 6.0 × 10−6 | 11(11↑) | 3.1 × 10−6 | 1.0 × 10−4 | 7(7↑) | 6.0 × 10−4 | 6.0 × 10−3 |
| Pyruvate metabolism (52) | 12(10↑) | 7.9 × 10−7 | 2.1 × 10−5 | 9(9↑) | 2.3 × 10−5 | 6.0 × 10−4 | 8(7↑) | 2.6 × 10−5 | 6.0 × 10−4 |
| Phagosome (221) | 24(13↑) | 1.4 × 10−6 | 2.7 × 10−5 | 19(11↑) | 1.5 × 10−5 | 5.0 × 10−4 | 17(12↑) | 6.5 × 10−6 | 2.0 × 10−4 |
| Fatty acid degradation (60) | 10(8↑) | 7.6 × 10−5 | 1.1 × 10−3 | 7(7↑) | 1.6 × 10−3 | 0.026 | 6(6↑) | 3.3 × 10−3 | 0.029 |
| Glycolysis / Gluconeogenesis (101) | 13(9↑) | 7.7 × 10−5 | 1.1 × 10−3 | 11(11↑) | 1.0 × 10−4 | 3.4 × 10−3 | 9(6↑) | 2.0 × 10−4 | 2.8 × 10−3 |
| Peroxisome (109) | 13(10↑) | 2.0 × 10−3 | 2.0 × 10−3 | 8(5↑) | 0.010 | 0.01 | 8(6↑) | 2.0 × 10−3 | 0.018 |
| Fatty acid metabolism (62) | 9(8↑) | 4.0 × 10−3 | 5.4 × 10−3 | 8(8↑) | 4 .0 × 10−4 | 8.0 × 10−3 | 6(6↑) | 4.7 × 10−3 | 0.038 |
| Propanoate metabolism (44) | 7(5↑) | 1.2 × 10−3 | 0.012 | 5(5↑) | 8.0 × 10−3 | 0.10 | 2(1↑) | 0.20 | 0.68 |
| Fatty acid elongation | 5(5↑) | 4.9 × 10−3 | 0.04 | 5(5↑) | 1.8 × 10−3 | 0.03 | 3(3↑) | 0.02 | 0.14 |
| Leukocyte transendothelial migration (166) | 13(9↓) | 5.3 × 10−3 | 0.045 | 8(6↓) | 0.08 | 0.46 | 8(5↓) | 0.018 | 0.13 |
| Antigen presentation by MHC class I(28)c | 6(5↓) | 5.3 × 10−5 | 2.3 × 10−3 | 4(3↓) | 2.1 × 10−3 | 0.045 | 4(3↓) | 5.0 × 10−4 | 0.06 |
aNumber of hits (number and direction of the majority of proteins). bNumber of proteins altered in female Smoker was higher than in males (χ2, p = 0.05); cthis pathway was analyzed using MetaCore