Table 1 WGS-based HLA genotyping accuracy that indicates how many HLA types were correctly determined with ALPHLARD, OptiType, PHLAT, and HLA-VBSeq

HLA-A

1st

100% (50/50)

100% (50/50)

76.0% (38/50)

96.0% (48/50)

2nd

98.0% (49/50)

98.0% (49/50)

60.0% (30/50)

82.0% (41/50)

3rd

98.0% (49/50)

N/A

46.0% (23/50)

82.0% (41/50)

HLA-B

1st

100% (48/48)

87.5% (42/48)

72.9% (35/48)

89.6% (43/48)

2nd

100% (48/48)

85.4% (41/48)

56.3% (27/48)

75.0% (36/48)

3rd

95.8% (46/48)

N/A

39.6% (19/48)

72.9% (35/48)

HLA-C

1st

100% (50/50)

100% (50/50)

78.0% (39/50)

96.0% (48/50)

2nd

98.0% (49/50)

94.0% (47/50)

56.0% (28/50)

66.0% (33/50)

3rd

98.0% (49/50)

N/A

44.0% (22/50)

66.0% (33/50)

HLA-DPA1

1st

100% (24/24)

N/A

N/A

87.5% (21/24)

2nd

100% (24/24)

N/A

N/A

87.5% (21/24)

3rd

100% (24/24)

N/A

N/A

87.5% (21/24)

HLA-DPB1

1st

100% (22/22)

N/A

N/A

86.4% (19/22)

2nd

100% (22/22)

N/A

N/A

86.4% (19/22)

3rd

100% (22/22)

N/A

N/A

86.4% (19/22)

HLA-DQA1

1st

100% (24/24)

N/A

70.8% (17/24)

100% (24/24)

2nd

95.8% (23/24)

N/A

62.5% (15/24)

95.8% (23/24)

3rd

95.8% (23/24)

N/A

62.5% (15/24)

95.8% (23/24)

HLA-DQB1

1st

100% (18/18)

N/A

77.8% (14/18)

100% (18/18)

2nd

94.4% (17/18)

N/A

61.1% (11/18)

88.9% (16/18)

3rd

94.4% (17/18)

N/A

38.9% (7/18)

88.9% (16/18)

HLA-DRB1

1st

100% (24/24)

N/A

70.8% (17/24)

95.8% (23/24)

2nd

100% (24/24)

N/A

50.0% (12/24)

58.3% (14/24)

3rd

100% (24/24)

N/A

45.8% (11/24)

58.3% (14/24)

Total

1st

100% (260/260)

95.9% (142/148)

74.8% (160/214)

93.8% (244/260)

2nd

98.5% (256/260)

92.6% (137/148)

57.5% (123/214)

78.1% (203/260)

3rd

97.7% (254/260)

N/A

45.3% (97/214)

77.7% (202/260)