Table 2.
40 consensus significant BRCA1-associated variable genes
| Gene symbol | Larsen | Nagel | ||||
|---|---|---|---|---|---|---|
| MAD ratio (95% CI) |
p value | Adjusted p value | MAD ratio (95% CI) |
p value | Adjusted p value | |
| A2ML1 |
100.59 (33.91–298.4) |
4.85E−06 | 2.58E−03 |
8.65 (2.65–28.24) |
4.66E−04 | 3.73E−02 |
| AFAP1-AS1 |
3.9 (0.71–21.49) |
2.81E−04 | 2.51E−02 |
12.25 (3.97–37.76) |
4.73E−04 | 3.76E−02 |
| CLOCK |
4.23 (1.71–10.48) |
3.43E−04 | 2.71E−02 |
4.39 (1.79–10.76) |
1.98E−04 | 2.45E−02 |
| COL22A1 |
20.66 (8.32–51.28) |
1.12E−06 | 1.06E−03 |
29.71 (10.84–81.43) |
2.39E−09 | 2.40E−05 |
| CT83 |
21.9 (4.13–116.2) |
4.87E−07 | 6.09E−04 |
127.09 (45.43–355.5) |
2.37E−04 | 2.63E−02 |
| CYP27C1 |
6.11 (1.94–19.29) |
1.03E−04 | 1.45E−02 |
10.23 (3.52–29.76) |
1.28E−05 | 5.06E−03 |
| DLX2 |
0.1 (0.03–0.33) |
1.53E−04 | 1.87E−02 |
0.1 (0.04–0.29) |
3.36E−05 | 8.76E−03 |
| ELOVL4 |
4.2 (1.41–12.5) |
1.30E−04 | 1.69E−02 |
4.12 (1.58–10.71) |
1.29E−05 | 5.06E−03 |
| EN1 |
10.77 (3.93–29.48) |
1.59E−08 | 5.63E−05 |
12.65 (4.88–32.76) |
5.52E−04 | 3.98E−02 |
| FBN3 |
21.06 (8.28–53.56) |
5.86E−06 | 2.68E−03 |
4.57 (1.88–11.1) |
2.93E−07 | 5.88E−04 |
| GABBR2 |
54.13 (19.58–149.6) |
6.70E−04 | 3.73E−02 |
42.2 (15–118.69) |
1.45E−05 | 5.29E−03 |
| GFRA3 |
4.03 (1.08–15.14) |
2.39E−04 | 2.29E−02 |
4.98 (1.79–13.85) |
5.88E−04 | 4.06E−02 |
| HORMAD1 |
11.43 (2.63–49.77) |
3.40E−04 | 2.70E−02 |
504.73 (191.28–1332) |
5.95E−05 | 1.21E−02 |
| HRCT1 |
7.72 (2.9–20.57) |
1.49E−09 | 1.05E−05 |
15.55 (5.69–42.49) |
4.13E−06 | 2.86E−03 |
| IGF2BP3 |
14.05 (4.07–48.47) |
4.06E−05 | 8.45E−03 |
25 (7.93–78.83) |
8.28E−07 | 1.04E−03 |
| IL12RB2 |
11.86 (3.76–37.36) |
8.06E−04 | 4.12E−02 |
27.08 (10.87–67.45) |
4.57E−04 | 3.69E−02 |
| KCND3 |
0.16 (0.06–0.41) |
6.94E−06 | 2.89E−03 |
0.18 (0.08–0.43) |
1.49E−06 | 1.30E−03 |
| KLK5 |
4.31 (1.44–12.92) |
9.99E−05 | 1.42E−02 |
7.87 (3.21–19.28) |
4.58E−05 | 1.08E−02 |
| KLK6 |
7.1 (2.69–18.75) |
1.77E−07 | 3.14E−04 |
7.08 (2.63–19.07) |
9.63E−05 | 1.56E−02 |
| KLK7 |
2.02 (0.73–5.58) |
3.29E−04 | 2.67E−02 |
5.09 (1.64–15.74) |
7.70E−04 | 4.83E−02 |
| KRT16 |
13.31 (5.01–35.38) |
2.18E−04 | 2.17E−02 |
10.61 (4.52–24.91) |
1.23E−05 | 5.05E−03 |
| LEMD1 |
18.41 (6.93–48.86) |
4.40E−07 | 5.85E−04 |
29.25 (10.64–80.37) |
5.60E−06 | 3.39E−03 |
| LINC00839 |
7.89 (3.39–18.4) |
1.76E−06 | 1.44E−03 |
23.16 (8.68–61.83) |
8.78E−05 | 1.50E−02 |
| LOXL4 |
2.79 (1.01–7.71) |
7.47E−04 | 3.96E−02 |
3.66 (1.46–9.18) |
7.27E−05 | 1.38E−02 |
| MAP2 |
4.51 (1.89–10.75) |
1.09E−03 | 4.83E−02 |
4.01 (1.62–9.95) |
5.57E−05 | 1.18E−02 |
| MIA |
3.96 (1.73–9.1) |
5.60E−04 | 3.41E−02 |
3.57 (1.53–8.29) |
8.25E−04 | 5.00E−02 |
| MSLN |
28.12 (7.23–109.38) |
4.33E−04 | 3.00E−02 |
38.82 (13.62–110.7) |
2.95E−06 | 2.19E−03 |
| NDRG1 |
5.56 (2.28–13.56) |
3.09E−04 | 2.64E−02 |
6.17 (2.74–13.92) |
3.71E−04 | 3.30E−02 |
| OPRK1 |
26.82 (7.14–100.76) |
1.94E−04 | 2.08E−02 |
6.91 (2.28–20.91) |
7.48E−06 | 4.13E−03 |
| PKP1 |
13.22 (4.3–40.62) |
4.46E−08 | 1.18E−04 |
4.21 (1.78–9.91) |
4.22E−04 | 3.58E−02 |
| POU4F1 |
11.38 (2.84–45.66) |
2.17E−04 | 2.17E−02 |
16.17 (5.44–48.02) |
1.06E−06 | 1.12E−03 |
| RNF150 |
5.72 (2.4–13.6) |
6.63E−05 | 1.09E−02 |
13.78 (5.61–33.81) |
5.37E−05 | 1.16E−02 |
| SIRT5 |
3.77 (1.47–9.69) |
2.00E−04 | 2.08E−02 |
3.17 (1.35–7.47) |
2.44E−04 | 2.66E−02 |
| SIX3 |
2.32 (0.69–7.88) |
1.75E−04 | 1.96E−02 |
10.31 (2.83–37.61) |
4.55E−04 | 3.69E−02 |
| SOX6 |
12.46 (4.51–34.46) |
1.16E−04 | 1.58E−02 |
18.88 (7.65–46.58) |
2.35E−08 | 9.23E−05 |
| SOX8 |
5.8 (1.71–19.69) |
1.07E−04 | 1.50E−02 |
15.5 (4.7–51.09) |
1.71E−04 | 2.23E−02 |
| STAC |
10.58 (4.12–27.16) |
3.62E−07 | 5.13E−04 |
9.14 (3.6–23.17) |
4.82E−07 | 7.44E−04 |
| SYT9 |
0.14 (0.04–0.44) |
4.44E−04 | 3.02E−02 |
0.07 (0.02–0.21) |
5.33E−04 | 3.92E−02 |
| TDRD6 |
4.44 (1.86–10.62) |
4.21E−04 | 2.93E−02 |
5.14 (1.99–13.29) |
6.65E−05 | 1.28E−02 |
| VGLL1 |
6.41 (2.77–14.87) |
7.15E−05 | 1.14E−02 |
35.59 (14.02–90.34) |
2.86E−04 | 2.89E−02 |
A ratio > 1 implies greater gene expression variability in BRCA1-associated tumours