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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