Table 2.
Details of the calling results inconsistent with the “true” HLA types. “fail” indicates that the program failed to reach an appropriate calling result
| Discordance (n) | |||||||
|---|---|---|---|---|---|---|---|
| Dataset | gene | True type (n) | HLA-VBSeq | HLA-VBSeq v2 | |||
| SJS | A | A*02:01 | 33 | A*02:06 | 2 | A*02:06 | 1 |
| A*24:02 | 55 | fail | 1 | ||||
| A*26:02 | 3 | A*26:01 | 1 | ||||
| A*31:01 | 18 | A*33:03 | 1 | ||||
| B | B*15:01 | 8 | B*46:01 | 1 | |||
| B*15:27 | 1 | B*15:01 | 1 | ||||
| B*40:06 | 8 | B*40:02 | 5 | ||||
| B*51:01 | 21 | B*51:02 | 4 | B*51:02 | 3 | ||
| B*54:01 | 8 | B*55:01 | 1 | ||||
| B*55:02 | 4 | B*55:01 | 2 | ||||
| B*56:01 | 3 | B*55:01 | 3 | ||||
| B*59:04 | 1 | B*59:01 | 1 | B*59:01 | 1 | ||
| C | C*01:02 | 40 | C*14:02 | 1 | |||
| C*04:82 | 1 | C*04:01 | 1 | ||||
| C*14:03 | 28 | C*14:02 | 20 | ||||
| THC | A | A*02:15 N | 1 | A*02:07 | 1 | ||
| A*03:02 | 1 | A*03:01 | 1 | ||||
| A*11:02 | A*11:01 | 1 | |||||
| A*24:02 | 314 | A*26:01 | 1 | ||||
| A*24:08 | 1 | A*24:02 | 1 | ||||
| A*24:20 | 10 | A*24:02 | 1 | ||||
| A*26:01 | 67 | A*02:06 | 1 | A*02:06 | 1 | ||
| A*25:01 | 1 | ||||||
| A*33:03 | 4 | ||||||
| A*26:02 | 12 | A*24:02 | 2 | A*24:02 | 1 | ||
| A*26:03 | 22 | A*24:02 | 1 | ||||
| A*26:01 | 1 | ||||||
| A*66:01 | 1 | ||||||
| A*26:05 | 1 | A*26:01 | 1 | A*26:01 | 1 | ||
| B | B*07:169 | 1 | B*07:02 | 1 | B*07:02 | 1 | |
| B*15:01 | 71 | B*46:01 | 1 | ||||
| B*15:07 | 5 | B*15:01 | 1 | ||||
| B*15:11 | 5 | B*07:02 | 1 | ||||
| B*15:01 | 1 | ||||||
| B*40:02 | 1 | ||||||
| B*46:01 | 1 | ||||||
| B*15:27 | 1 | B*15:01 | 1 | ||||
| B*46:01 | 1 | ||||||
| B*15:28 | 1 | B*15:428 | 1 | B*15:428 | 1 | ||
| B*35:01 | 67 | B*39:01 | 1 | B*39:01 | 1 | ||
| B*40:02 | 57 | B*40:356 | 1 | ||||
| B*40:06 | 34 | B*40:01 | 1 | ||||
| B*40:02 | 20 | ||||||
| B*40:04 | 2 | ||||||
| B*44:03 | 1 | ||||||
| B*46:01 | 1 | ||||||
| B*40:52 | 1 | B*40:01 | 1 | ||||
| B*40:02 | 1 | ||||||
| B*51:01 | 70 | B*15:01 | 1 | B*15:01 | 1 | ||
| B*40:01 | 1 | ||||||
| B*51:02 | 1 | B*51:02 | 4 | ||||
| B*54:01 | 1 | ||||||
| B*52:01 | 80 | B*07:02 | 1 | ||||
| B*51:01 | 1 | ||||||
| B*51:02 | 1 | ||||||
| B*52:54 | 1 | ||||||
| B*54:01 | 64 | B*15:18 | 1 | ||||
| B*35:01 | 2 | ||||||
| B*40:02 | 2 | ||||||
| B*44:02 | 1 | ||||||
| B*44:03 | 3 | ||||||
| B*46:01 | 1 | ||||||
| B*55:01 | 7 | ||||||
| B*55:02 | 20 | B*35:01 | 1 | ||||
| B*40:01 | 1 | ||||||
| B*51:01 | 2 | ||||||
| B*54:01 | 1 | ||||||
| B*55:01 | 3 | ||||||
| B*67:01 | 1 | ||||||
| B*56:01 | 5 | B*55:01 | 4 | ||||
| B*67:01 | 11 | B*39:01 | 2 | ||||
| C | C*01:02 | 135 | C*08:01 | 1 | |||
| C*03:02 | 2 | C*03:04 | 2 | ||||
| C*03:03 | 111 | C*03:04 | 1 | C*03:04 | 1 | ||
| C*07:02 | 1 | C*07:02 | 1 | ||||
| C*04:82 | 10 | C*04:01 | 8 | ||||
| C*08:22 | 2 | C*08:01 | 1 | ||||
| C*14:03 | 67 | C*07:02 | 1 | ||||
| C*12:02 | 1 | ||||||
| C*14:02 | 49 | ||||||
Bold font highlights an example (mentioned in the text) for which including the ToMMo HLA panel allowed identification of the correct HLA type