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Table 1 The HRD scores of SNP array and the target panel

From: GSA: an independent development algorithm for calling copy number and detecting homologous recombination deficiency (HRD) from target capture sequencing

Sample SNP array HRD panel
purity LOH TAI LST ploidy HRD Score purity LOH TAI LST ploidy HRD Score
S001 0.40 30 17 62 2.57 69.11 0.44 34 18 80 3.31 80.64
S002 0.38 32 18 55 2.39 67.98 0.41 29 18 63 2.66 68.75
S003 0.64 27 20 36 1.84 54.55 0.75 31 20 42 1.95 62.77
S004 0.60 32 18 40 1.85 61.33 0.69 33 18 41 1.92 62.23
S005 0.68 22 19 67 3.17 58.81 0.79 22 19 71 3.23 61.88
S006 0.48 20 17 74 3.19 61.60 0.53 19 19 76 3.64 57.53
S007 0.46 25 18 27 1.64 44.58 0.41 28 21 36 1.94 54.99
S008 0.59 26 20 30 1.75 48.87 0.70 28 21 32 1.78 53.39
S009 0.50 7 14 87 3.44 54.73 0.51 9 19 78 3.70 48.59
S010 0.21 30 14 32 2.00 44.98 0.31 24 19 34 1.99 46.11
S011 0.52 24 15 30 1.75 41.88 0.62 24 12 39 1.91 45.41
S012 0.58 20 15 29 1.81 35.92 0.64 21 16 36 1.94 42.91
S013 0.39 23 18 48 3.23 38.94 0.45 22 22 48 3.28 41.22
S014 0.43 15 22 54 2.82 47.34 0.53 13 16 60 3.12 40.60
S015 0.61 21 16 31 1.66 42.25 0.72 23 14 32 1.87 40.03
S016 0.35 23 13 37 2.52 33.98 0.46 17 9 62 3.14 39.36
S017 0.72 19 15 26 1.76 32.74 0.83 20 16 32 1.88 38.92
S018 0.50 17 16 55 3.59 32.43 0.55 18 20 55 3.59 37.39
S019 0.30 24 19 38 2.96 35.19 0.37 23 18 43 3.04 36.91
S020 0.60 19 14 27 1.92 30.23 0.67 19 16 29 2.03 32.58
S021 0.62 12 17 48 3.33 25.35 0.70 14 18 53 3.39 32.50
S022 0.55 15 12 53 3.68 22.97 0.67 17 14 55 3.71 28.52
S023 0.28 20 13 30 2.13 30.03 0.26 17 15 37 2.61 28.49
S024 0.59 16 13 25 1.82 25.83 0.66 17 17 26 1.92 30.24
S025 0.54 16 14 24 1.78 26.36 0.58 16 14 24 1.81 25.96
S026 0.34 7 13 47 3.58 11.49 0.43 7 18 57 3.66 25.21
S027 0.77 18 11 25 1.85 25.35 0.88 15 19 29 2.01 31.84
S028 0.72 18 13 26 1.85 28.38 0.83 16 11 26 1.94 22.99
S029 0.25 14 7 18 2.04 7.34 0.21 17 9 37 2.65 21.96
S030 0.73 17 12 21 1.89 20.69 0.83 17 12 23 1.94 21.96
S031 0.67 18 13 23 1.87 24.95 0.79 18 11 23 1.94 21.94
S032 0.61 17 8 23 1.95 17.77 0.68 18 8 25 2.01 19.83
S033 0.49 15 11 30 2.81 12.47 0.67 18 11 35 2.92 18.67
S034 0.56 18 9 18 1.68 18.90 0.65 15 7 21 1.69 16.83
S035 0.36 12 8 16 1.83 7.59 0.39 13 9 24 2.06 14.11
S036 0.70 8 13 32 2.76 10.16 0.77 6 15 35 2.84 12.04
S037 0.72 8 3 5 1.89  − 13.35 0.83 5 2 6 1.91  − 16.63
S038 0.41 5 4 8 2.02  − 14.37 0.43 4 2 10 2.12  − 16.87
S039 0.34 1 1 1 1.98  − 27.67 0.34 2 1 8 2.33  − 25.12
S040 1.00 0 0 0 2.00  − 31.00 1.00 0 0 0 2.00  − 31.00