Table 2.
Genes Differentially Expressed in Adenocarcinoma (T versus NT) in Macro and LCM Samples
| Macro |
LCM |
||||
|---|---|---|---|---|---|
| Gene | FC∗ | Padjusted† | Gene | FC∗ | Padjusted† |
| Up-regulated (adenocarcinoma) | |||||
| SPP1‡ | 11.4 | 7.76 × 10−9 | SPINK1‡ | 38.3 | 3.25 × 10−3 |
| SPINK1‡ | 6.7 | 2.59 × 10−4 | CP | 15.9 | 4.31 × 10−3 |
| AFAP1‡ | 6.4 | 5.41 × 10−7 | OCIAD2 | 6.9 | 4.64 × 10−6 |
| TMPRSS4 | 5.3 | 1.51 × 10−6 | SNORA73A | 6.8 | 5.97 × 10−4 |
| MUC21 | 4.5 | 2.66 × 10−5 | AGR2‡ | 6.6 | 4.44 × 10−4 |
| MUC21 | 4.4 | 3.02 × 10−5 | GOLM1 | 4.5 | 4.88 × 10−3 |
| MUC21 | 4.2 | 1.94 × 10−5 | LRIG3 | 4.5 | 2.58 × 10−2 |
| MMP12 | 4.2 | 2.41 × 10−4 | SPP1‡ | 4.2 | 4.78 × 10−2 |
| CEACAM5 | 3.8 | 1.65 × 10−3 | NQO1 | 4.2 | 8.22 × 10−3 |
| ANKRD22 | 3.5 | 6.85 × 10−7 | BAIAP2L1 | 3.8 | 6.67 × 10−4 |
| CST1 | 3.5 | 2.28 × 10−4 | EHF | 3.8 | 3.81 × 10−5 |
| MMP1 | 3.4 | 3.13 × 10−3 | FRK | 3.4 | 2.78 × 10−3 |
| CXCL13 | 3.3 | 1.31 × 10−4 | SLC44A4 | 3.4 | 9.27 × 10−4 |
| AGR2‡ | 3.1 | 1.04 × 10−5 | SLC44A4 | 3.4 | 9.27 × 10−4 |
| GREM1 | 3.1 | 6.71 × 10−4 | SLC44A4 | 3.4 | 9.27 × 10−4 |
| COL10A1 | 3.1 | 2.81 × 10−5 | SLC41A2 | 3.4 | 2.14 × 10−3 |
| MUC5B | 3.1 | 2.54 × 10−3 | MUC1 | 3.3 | 8.90 × 10−4 |
| ABCC3 | 3.0 | 2.66 × 10−9 | LOC151009 | 3.3 | 8.78 × 10−3 |
| GCNT3 | 2.9 | 7.86 × 10−6 | AFAP1‡ | 3.3 | 2.63 × 10−2 |
| GLB1L3 | 2.9 | 2.53 × 10−3 | HOOK1 | 3.2 | 4.50 × 10−5 |
| Down-regulated (adenocarcinoma) | |||||
| SLC6A4 | 0.10 | 4.54 × 10−8 | SFTPC | 0.02 | 2.11 × 10−9 |
| FABP4‡ | 0.11 | 1.09 × 10−8 | HBB | 0.05 | 1.89 × 10−6 |
| TMEM100‡ | 0.14 | 1.59 × 10−9 | FABP4‡ | 0.05 | 2.52 × 10−8 |
| ANKRD1‡ | 0.18 | 4.27 × 10−7 | PECAM1 | 0.07 | 1.26 × 10−7 |
| AGER | 0.18 | 8.08 × 10−8 | CAV1 | 0.07 | 2.11 × 10−9 |
| AGER | 0.19 | 5.85 × 10−8 | ANKRD1‡ | 0.07 | 4.14 × 10−9 |
| AGER | 0.19 | 5.06 × 10−8 | MRC1 | 0.07 | 1.47 × 10−4 |
| RTKN2‡ | 0.19 | 5.13 × 10−9 | MRC1 | 0.07 | 1.47 × 10−4 |
| FCN3 | 0.20 | 7.74 × 10−8 | CALCRL | 0.07 | 1.05 × 10−5 |
| GKN2 | 0.21 | 7.97 × 10−5 | LDB2 | 0.09 | 8.70 × 10−9 |
| CPB2 | 0.22 | 2.69 × 10−5 | FMO2 | 0.09 | 2.21 × 10−5 |
| WIF1 | 0.23 | 7.71 × 10−5 | CRYAB | 0.09 | 1.47 × 10−6 |
| NCKAP5 (alias NAP5) | 0.23 | 7.79 × 10−10 | GMFG | 0.10 | 9.69 × 10−5 |
| PKHD1L1 | 0.24 | 4.25 × 10−9 | LPHN2 | 0.10 | 3.66 × 10−6 |
| ACADL | 0.24 | 3.67 × 10−8 | ABI3BP | 0.10 | 2.74 × 10−8 |
| CD36 | 0.25 | 1.80 × 10−6 | RTKN2‡ | 0.10 | 1.18 × 10−6 |
| FIGF | 0.25 | 7.59 × 10−6 | CD36 | 0.10 | 6.40 × 10−4 |
| IGSF10 | 0.25 | 3.29 × 10−9 | TMEM100‡ | 0.11 | 1.25 × 10−7 |
| GPM6A | 0.25 | 4.72 × 10−10 | PTPRB | 0.11 | 1.54 × 10−7 |
| EDNRB | 0.25 | 2.75 × 10−9 | DCN | 0.12 | 1.31 × 10−4 |
Macro: n = 17 T, n = 18 NT, n = 17 pairs. LCM: n = 11 T, n = 10 NT, n = 7 pairs. Repeated gene names indicate redundant probe sets.
∗
Fold change (FC) reflects the ratio of transcript levels in T versus NT alveolar, by microarray.
†
Benjamini–Hochberg FDR-adjusted significance.
‡
Genes common to both Macro and LCM signatures.