| Gene description | Gene symbol | Probe set ID | Parametric p-value | FDR | Fold-change | Direction in IPF |
| Cellular proliferation | ||||||
| Signal transducer and activator of transcription 1, 91 kDa | STAT1 | 200887_s_at | 0.0001192 | 0.03 | 1.8 | Up |
| SPARC-related modular calcium binding 2 | SMOC2 | 223235_s_at | 1.83×10−5 | 0.01 | 2.34 | Up |
| YY1 transcription factor | YY1 | 224718_at | 0.0003999 | 0.05 | 0.58 | Down |
| Kruppel-like factor 10 | KLF10 | 202393_s_at | 0.0001628 | 0.03 | 0.44 | Down |
| Transforming growth factor-β-induced, 68 kDa | TGFBI | 201506_at | 1.41×10−5 | 0.01 | 2.41 | Up |
| Thy-1 cell surface antigen | THY1 | 213869_x_at | 0.0001963 | 0.03 | 3.53 | Up |
| Wnt signalling | ||||||
| Secreted frizzled-related protein 2 | SFRP2 | 223122_s_at | 0.0004054 | 0.05 | 9 | Up |
| Apoptosis | ||||||
| Insulin-like growth factor binding protein 3 | IGFBP3 | 212143_s_at | 0.0001555 | 0.03 | 0.29 | Down |
| Homeodomain interacting protein kinase 2 | HIPK2 | 225368_at | 0.0002484 | 0.04 | 0.44 | Down |
| Pim-1 oncogene | PIM1 | 209193_at | 4.39×10−5 | 0.02 | 0.31 | Down |
| Endothelial dysfunction/proliferation | ||||||
| Plasminogen activator, urokinase | PLAU | 205479_s_at | 0.0001612 | 0.03 | 2.29 | Up |
| Sphingosine-1-phosphate receptor 1 | S1PR1 | 239401_at | 0.000134 | 0.03 | 0.45 | Down |
| Kruppel-like factor 6 | KLF6 | 224606_at | 9.92×10−5 | 0.03 | 0.53 | Down |
| Hypoxia-related signalling | ||||||
| Arginase, type II | ARG2 | 203946_s_at | 0.000145 | 0.03 | 0.4 | Down |
| Hypoxia inducible factor 3, α-subunit | HIF3A | 219319_at | 0.0006036 | 0.05 | 0.34 | Down |
| Rho-GTPase activating protein 26 | ARHGAP26 | 205068_s_at | 8.69×10−5 | 0.03 | 0.47 | Down |
| Complement activation | ||||||
| Complement component 4A | C4A | 214428_x_at | 5.8×10−6 | 0.01 | 2.93 | Up |
| Complement component 4B | C4B | 208451_s_at | 2.07×10−5 | 0.01 | 2.71 | Up |
| Complement factor H | CFH | 213800_at | 0.0002801 | 0.04 | 3.61 | Up |
| Vasoreactivity | ||||||
| Potassium large conductance calcium-activated channel | KCNMB4 | 219287_at | 0.0006496 | 0.05 | 0.42 | Down |
| Prostaglandin F2 receptor negative regulator | PTGFRN | 224937_at | 3.50×10−5 | 0.02 | 2.36 | Up |
| Angiotensin II receptor, type 2 | AGTR2 | 207294_at | 0.0009539 | 0.06 | 0.59 | Down |
Univariate analysis demonstrated 255 differentially expressed genes between IPF arterioles and controls p<0.001, q<10. A full list is available in the online supplementary material. FDR: false discovery rate; SPARC: secreted protein, acidic, cysteine-rich; YY1: yin and yang protein; Thy-1: thymus cell antigen 1; Pim-1: proviral integration site 1; Rho-GTPase: Rho-guanosine triphosphate hydrolase.