Table 2.
Common genes between GWAS and transcriptomic profiling (p < .05).
| Gene | Chr | Gene ID | Description | Transcriptomea |
GWAS |
||
|---|---|---|---|---|---|---|---|
| Fold change | p | SNP | p | ||||
| ALDH1A1 | 9 | 216 | Aldehyde dehydrogenase 1 family, member A1 | −2.1 | 0.01294 | 29 | 0.02264 |
| ANGPTL2 | 9 | 23,452 | Angiopoietin-like 2 | −2.1 | 0.01364 | 5 | 0.00878 |
| BBS4 | 15 | 585 | Bardet-Biedl syndrome 4 | −2.1 | 0.01240 | 5 | 0.04792 |
| C1orf54 | 1 | 79,630 | Chromosome 1 open reading frame 54 | −2.2 | 0.01047 | 3 | 0.03904 |
| CANX | 5 | 821 | Calnexin | −2.5 | 0.00366 | 1 | 0.04936 |
| CCDC144A | 17 | 9720 | Coiled-coil domain containing 144A | −2.0 | 0.02563 | 1 | 0.04716 |
| CLDN18 | 3 | 51,208 | Claudin 18 | −2.0 | 0.00403 | 7 | 0.03534 |
| CRYZL1 | 21 | 9946 | Crystallin, zeta (quinone reductase)-like 1 | −2.3 | 0.03630 | 3 | 0.03622 |
| CTSS | 1 | 1520 | Cathepsin S | −2.2 | 0.01058 | 2 | 0.00318 |
| DDI2 | 1 | 84,301 | DDI1, DNA-damage inducible 1, homolog 2 (S. cerevisiae) | −2.4 | 0.00707 | 2 | 0.00074 |
| DGKH | 13 | 160,851 | Diacylglycerol kinase, eta | −2.5 | 0.01353 | 71 | 0.04530 |
| DSG2 | 18 | 1829 | Desmoglein 2 | −2.3 | 0.00147 | 12 | 0.01370 |
| EGFR | 7 | 1956 | Epidermal growth factor receptor [erythroblastic leukemia viral (v-erb-b) oncogene homolog, avian) | −2.4 | 0.01896 | 1 | 0.01781 |
| EPAS1 | 2 | 2034 | Endothelial PAS domain protein 1 | −2.6 | 0.04683 | 35 | 0.00262 |
| FOS | 14 | 2353 | V-fos FBJ murine osteosarcoma viral oncogene homolog | −2.9 | 0.02894 | 2 | 0.03475 |
| GPR4 | 19 | 2828 | G protein-coupled receptor 4 | −2.2 | 0.02893 | 5 | 0.01226 |
| GYPC | 2 | 2995 | Glycophorin C (Gerbich blood group) | −2.9 | 0.00198 | 23 | 0.03402 |
| HIF1A | 14 | 3091 | Hypoxia-inducible factor 1, alpha subunit (basic helix-loop-helix transcription factor) | −2.0 | 0.01108 | 8 | 0.00307 |
| HIST1H1A | 6 | 3024 | Histone cluster 1, H1a | 2.1 | 0.00948 | 1 | 0.01148 |
| HSDL1 | 16 | 83,693 | Hydroxysteroid dehydrogenase like 1 | 2.1 | 0.02955 | 1 | 0.01549 |
| IFT81 | 12 | 28,981 | Intraflagellar transport 81 homolog (Chlamydomonas) | −2.2 | 0.04329 | 6 | 0.02961 |
| KIAA1407 | 3 | 57,577 | KIAA1407 | −3.1 | 0.01488 | 6 | 0.00387 |
| LEPR | 1 | 3953 | Leptin receptor | −2.0 | 0.02291 | 1 | 0.03057 |
| LYVE1 | 11 | 10,894 | Lymphatic vessel endothelial hyaluronan receptor 1 | −2.5 | 0.02175 | 2 | 0.02959 |
| MED31 | 17 | 51,003 | Mediator complex subunit 31 | −2.6 | 0.01772 | 1 | 0.02361 |
| MS4A6A | 11 | 64,231 | Membrane-spanning 4-domains, subfamily A, member 6A | −2.0 | 0.04791 | 4 | 0.00202 |
| MYLK | 3 | 4638 | Myosin, light chain kinase | −3.5 | 0.00032 | 1 | 0.00935 |
| NAMPT | 7 | 10,135 | nicotinamide phosphoribosyltransferase | −2.1 | 0.01653 | 5 | 0.00979 |
| NUP50 | 22 | 10,762 | Nucleoporin 50 kDa | −2.6 | 0.00218 | 4 | 0.03813 |
| PAAF1 | 11 | 80,227 | Proteasomal ATPase-associated factor 1 | −2.0 | 0.00515 | 8 | 0.00595 |
| PACRG | 6 | 135,138 | PARK2 co-regulated | −2.0 | 0.00203 | 1 | 0.04082 |
| PARP1 | 1 | 142 | Poly (ADP-ribose) polymerase family, member 1 | 2.2 | 0.01837 | 8 | 0.02273 |
| PDCD2 | 6 | 5134 | Programmed cell death 2 | −2.3 | 0.03616 | 3 | 0.04564 |
| PLEKHB1 | 11 | 58,473 | Pleckstrin homology domain containing, family B (evectins) member 1 | −2.5 | 0.00524 | 5 | 0.04509 |
| PRKAG2 | 7 | 51,422 | Protein kinase, AMP-activated, gamma 2 non-catalytic subunit | −2.3 | 0.02595 | 1 | 0.03415 |
| PRKCQ | 10 | 5588 | Protein kinase C, theta | −2.3 | 0.00363 | 83 | 0.02882 |
| RBMS1 | 2 | 5937 | RNA binding motif, single stranded interacting protein 1 | −2.3 | 0.00746 | 26 | 0.01284 |
| RRM2B | 8 | 50,484 | Ribonucleotide reductase M2 B (TP53 inducible) | −2.0 | 0.01162 | 10 | 0.02509 |
| S1PR5 | 19 | 53,637 | Sphingosine-1-phosphate receptor 5 | −2.0 | 0.00713 | 2 | 0.01977 |
| SEMA6A | 5 | 57,556 | Sema domain, transmembrane domain, and cytoplasmic domain, (semaphorin) 6A | −4.4 | 2.03E-06 | 60 | 0.00432 |
| SMG1 | 16 | 23,049 | PI-3-kinase-related kinase SMG-1 | −2.1 | 0.01381 | 11 | 0.00747 |
| TACC3 | 4 | 10,460 | Transforming, acidic coiled-coil containing protein 3 | 2.2 | 0.03279 | 5 | 0.02719 |
| TCIRG1 | 11 | 10,312 | T-cell, immune regulator 1, ATPase, H+ transporting, lysosomal V0 subunit A3 | −2.7 | 0.02007 | 1 | 0.02523 |
| ZDHHC19 | 3 | 131,540 | Zinc finger, DHHC-type containing 19 | −2.6 | 0.01204 | 8 | 0.04905 |
| ZNF274 | 19 | 10,782 | Zinc finger protein 274 | −3.1 | 0.00116 | 7 | 0.04410 |
| ZRANB2 | 1 | 9406 | Zinc finger, RAN-binding domain containing 2 | −2.3 | 0.00502 | 4 | 0.00498 |
a
Fold change indicates difference between tumor tissue and non-affected adjacent tissue. P-values are from paired t-tests.