Skip to main content

Table 1 HLA predictions of class I and class II genes

From: HLAreporter: a tool for HLA typing from next generation sequencing data

  HLAminer HLAreporter HLAminer HLAreporter HLAminer HLAreporter HLAminer HLAreporter DRB1 HLAminer HLAreporter DQB1
ID (SRR)a HLA-A HLA-A HLA-B HLA-B HLA-C HLA-C HLA-DRB1 DRB1(exon 2) (exon 2&3) b HLA-DQB1 DQB1 (exon 2) (exon 2&3) b
359102 *30:01; *30:02; *30:04; *66:01 *30:02:01G; *66:01:01G *15:83; *18:01; *18:26; *41:01; *45:01; *50:01 *18:01:01G; *41:02:01 *05:01; *17:01 *05:01:01G; *17:01:01G *03:01; *07:01 *03:01:01G *03:01:01 *02:01 *02:01:01G *02:01:01
359103 *01:01; *01:03; *02:01; *02:03; *11:02; *68:08 *01:01:01G; *02:01:01G *18:01; *18:03; *57:01 *18:01:01G; *57:01:01G *07:01 *07:01:01G *03:01; *07:01 *03:01:01G; *07:01:01G *03:01:01; *07:01:01 *02:01; *03:03 *02:01:01G; *03:03:02G *02:01:01; *03:03:02
359108 - *03:01:01G; *68:02:01Gp - *35:01:01G; *53:01:01 *04:01 *04:01:01G - *04:05:01; *08:04:01 *04:05:01; *08:04:01 - *03:01:01G; *03:02:01G *03:01:04; *03:02:01
359298 *11:01; *11:02; *11:50; *24:02; *24:07; *24:20c *11:02:01G; *24:07p *27:04; *27:25; *39:34; *40:02; *40:06 *27:04:01G; *39:05:01 *08:01; *08:21; *12:02; *12:03 *08:01:01G; *12:02:01Gp *04:03; *08:03; *12:01; *14:54c *08:03:02; *12:02:01 *08:03:02; *12:02:01 *03:01; *06:01 *03:01:01G; *06:01:01G *03:01:01; *06:01:01
359295 *02:03; *03:01 *02:03:01G; *03:01:01Gp *35:01; *35:03; *37:01; *55:02; *55:48; *56:01 *35:03:01G; *55:02:01Gp *01:02; *04:01; *04:03; *12:03; *15:02; *15:16c *04:01:01G; *12:03:01G *04:03; *07:01; *08:03; *14:05 *08:02:01; *14:05:01 *08:02:01; *14:05:01 *03:02; *03:03; *03:05; *05:03 *04:02:01; *05:03:01G *04:02:01; *05:03:01
360655 *30:01; *30:02; *30:04; *32:01; *74:01; *74:11 *30:02:01G; *74:01:01G *15:03; *57:01; *57:06; *57:11 *15:03:01G; *57:03:01p *02:02; *02:11; *07:01 *02:10; *07:01:01Gp *07:01; *08:03; *11:01; *13:02 *11:01:02; *13:02:01 *11:01:02; *13:02:01 *05:01; *05:03; *06:09 *05:02:01G; *06:09:01 *05:02:01; *06:09:01
360288 *02:01 *02:01:01G; *02:11:01G *15:01; *15:07; *15:32; *35:14; *58:01 *15:04; *35:05:01 *01:02; *04:01; *04:03; *04:06 *01:02:01G; *04:01:01G *04:03; *07:01 *04:11:01; *09:01:02 *04:11:01; *09:01:02 *03:02 *03:02:01G; *03:03:02G *03:02:01; *03:03:02
360391 *02:01; *02:48; *68:01 *02:01:01G; *68:01:02Gp *07:02; *40:02; *40:06 *07:02:01G; *40:02:01Gp *03:03; *03:04; *07:02 *03:04:01G; *07:02:01Gp *01:01; *07:01 *01:03; *09:01:02 *01:03; *09:01:02 *03:03; *05:01 *03:03:02G; *05:01:01G *03:03:02; *05:01:01
360148 *01:01; *02:01; *36:01 *02:01:01G; *36:01 *07:02; *35:01; *35:41; *40:01; *40:79; *53:01c *35:01:01G; *40:01:01Gp *03:02; *03:04; *04:01; *04:03; *15:02; *15:17c *03:04:01G; *04:01:01G *01:01; *01:02; *07:01; *15:01 *01:01:01G; *15:01:01G *01:01:01; *15:01:01 *05:01; *06:02 *06:02:01G; *05:01:01G *06:02:01; *05:01:01
359301 *02:03; *11:02; *31:01; *32:01; *74:01; *74:11 *02:03:01G; *31:01:02Gp *13:01; *48:01 *13:01:01G; *48:01:01G *03:03; *03:04 *03:03:01G; *03:04:01G *07:01; *08:03; *11:01 *11:01:01G; *13:12:01 *11:01:01; *13:12:01 *03:01 *03:01:01G *03:01:01
359098 - *03:01:01G; *68:02:01Gp - *35:01:01G; *53:01:01 *04:01 *04:01:01G - *04:05:01; *08:04:01 *04:05:01; *08:04:01 - *03:01:01G; *03:02:01G *03:01:04; *03:02:01
  1. a‘SRR’ is the prefix of each sample name, which is not explicitly shown in the table due to space limitations. bAll alleles with identical exon 2 and 3 sequences are reported. For example, after examining exons 2 and 3 of allele DQB1*03:03:02G, HLAreporter reports alleles 03:03:02:01/03:03:02:02/03:03:02:03. Since the last two digits out of eight digit-based HLA nomenclature are determined by intronic sequences, we only present the first six digits *03:03:02 in the table after examining the minor exon. cAdditional ambiguity at four-digit resolution is not shown. pPhase was reported.