Table 3 Enrichment of functional interactors of COPD GWAS genes in the gene expression results (differentially expressed genes with FDR < 0.05).
Experiment | Number of genes or proteins* | Overlap with 204 COPD genes | Enrichment p-value for COPD genes | Overlap with 1,366 FEV1% predicted genes | Enrichment p-value for FEV1% predicted genes | Overlap with 1,429 FEV1/FVC genes | Enrichment p-value for FEV1/FVC genes |
|---|---|---|---|---|---|---|---|
IREB2 RIP-seq | 4008 | 64 | 2.4e-5 | 359 | 3.6e-11 | 400 | <1.0e-12 |
HHIP affinity purification | 216 | 5 | 0.062 | 34 | 1.8e-6 | 45 | 1.6e-11 |
FAM13A affinity purification | 97 | 0 | 1 | 8 | 0.31 | 8 | 0.35 |
Hhip+/+ vs. Hhip+/− mouse, 6 mo smoke | 492 | 15 | 0.00011 | 60 | 2.7e-6 | 61 | 5.4e-6 |
Hhip mouse, genotype x smoke interaction | 549 | 12 | 0.0082 | 46 | 0.054 | 46 | 0.095 |
IREB2 Irp2+/+ vs. Irp2−/− mouse knockout | 31 | 0 | 1 | 3 | 0.33 | 3 | 0.36 |
HHIP shRNA knockdown | 266 | 3 | 0.49 | 20 | 0.30 | 19 | 0.46 |
FAM13A siRNA knockdown | 598 | 13 | 0.0063 | 54 | 0.011 | 61 | 0.0013 |
IREB2 trans-eQTLs at p < 0.05 | 1612 | 31 | 0.00023 | 171 | 1.4e-10 | 159 | 1.7e-6 |
HHIP trans-eQTLs at p < 0.05 | 1560 | 21 | 0.087 | 143 | 2.4e-05 | 156 | 9.4e-7 |
FAM13A trans-eQTL at p < 0.05 | 1753 | 38 | 2.7e-06 | 209 | <1.0e-12 | 194 | 8.7e-12 |
