Table 2.
Correlation of HLA class II gene expression with survival in breast cancer generated from Cox regression analysis via OncoLnc.
| Gene | Cox coefficient | p value | FDR corrected |
Rank | Median expression | Mean expression |
|---|---|---|---|---|---|---|
| HLA-DRA | −0.191 | .029 | 0.313 | 1525 | 11992.61 | 15710.87 |
| HLA-DRB1 | −0.174 | .045 | 0.359 | 2067 | 3996.03 | 5483.97 |
| HLA-DRB5 | −0.197 | .025 | 0.297 | 1374 | 972.55 | 1914.29 |
| HLA-DPA1 | −0.183 | .038 | 0.342 | 1834 | 5003.01 | 6437.27 |
| HLA-DPB1 | −0.218 | .015 | 0.257 | 948 | 3166.61 | 4039.74 |
| HLA-DOA | −0.096 | .029 | 0.662 | 7200 | 502.77 | 686.02 |
| HLA-DOB | −0.273 | .022 | 0.159 | 222 | 43.64 | 98.61 |
| HLA-DQA1 | −0.159 | .071 | 0.419 | 2813 | 1498.35 | 2416.63 |
| HLA-DQA2 | −0.162 | .065 | 0.406 | 2650 | 311.62 | 520.16 |
| HLA-DQB1 | −0.182 | .038 | 0.342 | 1835 | 1658.76 | 2543.25 |
| HLA-DQB2 | −0.23 | .085 | 0.229 | 613 | 111.52 | 215.15 |
| HLA-DMA | −0.179 | .042 | 0.353 | 1961 | 1094.54 | 1401.77 |
| HLA-DMB | −0.131 | .014 | 0.509 | 4445 | 880.54 | 1146.03 |
The Cox coefficient and P value were generated from multivariate Cox regressions. The FDR correction and the rank were calculated per cancer analysis per data type. A negative Cox coefficient indicated that the gene is a protective factor.
FDR = false discovery rate, HLA = human leukocyte antigen.