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Table 2 Pathological and DNA sample information for NGS analysis

From: Next-generation sequencing analysis of endometrial screening liquid-based cytology specimens: a comparative study to tissue specimens

Case no.

Sample no.

Samples

Pathological diagnosis

Storage time

DNA yield (ng/μL)

QC score

Input DNA (ng)

Tumor fraction in FFPE (%)

Tumor cell count and tumor cell ratio in LBC

Insufficient VAF call

Tumor cells (T)

Non-tumor cells (N)

Tumor cell ratio (T/N+T)%

1

1

SR(Ut)

EC G1

1 m

1.655

0.012

200

30

    

2

2

SR(Ut)

EC G1

2 m

5.510

0.003

100

80

    

3

3

SR(Ut)

EC G2

1 m

2.980

0.008

100

60

    

4

4

SR(Ut)

EC G1

1 m

1.521

0.016

200

50

    

5

5

SR(Ut)

EC G1

3 m

4.033

0.010

119

80

    

6

6

SR(Ut)

EC G1

3 m

6.636

0.003

72

30

    
 

7

SR(Ut)

EC G2

3 m

6.071

0.004

79

60

    

7

8

SR(Ut)

EC G1 + Sq

1 m

5.912

0.003

200

70

    

8

9

SR(Ut)

Mixed EC/SC

2 m

3.487

0.010

138

50

    
 

10

SR(Om)

Mixed EC/SC

2 m

4.897

0.007

98

30

    

9

11

Bx

SC

3 m

6.425

0.004

75

80

    
 

12

SR(Ut)

CCC

3 m

1.930

0.015

168

90

    
 

13

End LBC

AC

3 m

28.879

0.000

20

 

6661

10,059

39.8

 

10

14

SR(Ut)

DC

3 m

3.337

0.007

144

70

    
 

15

SR(Ut)

EC G1

3 m

5.743

0.004

84

70

    

11

16

SR(Ut)

AC

1 m

2.327

0.011

168

60

    
 

17

SR(Ut)

DC

1 m

0.939

0.016

168

50

    
 

18

SR(Ov)

EC G3

1 m

1.778

0.012

168

40

    

12

19

Bx

AC

1 m

2.264

0.010

168

60

    
 

20

SR(Ut)

EC G2

1 m

3.025

0.006

168

70

    
 

21

End LBC

Malig

2 m

21.861

0.002

22

 

19,588

4087

82.7

 

13

22

SR(Ut)

EC G1

1 m

2.338

0.010

168

50

    

14

23

Bx

EC G1

1 m

5.664

0.001

85

70

    
 

24

End LBC

AGC

2 m

23.839

−0.003

10

 

1450

136

91.4

 

15

25

SR(Ut)

DC

1 m

6.249

0.008

77

90

    
 

26

SR(Ut)

AC

1 m

5.830

0.010

85

90

    

16

27

Bx

AC

1 m

5.029

0.010

95

80

    
 

28

SR(Ut)

Serous

1 m

0.872

0.017

168

40

    
 

29

End LBC

AC

2 m

14.257

0.005

31

 

22,261

3928

85.0

 

17

30

SR(Ut)

AH

1 m

3.443

0.007

140

70

    
 

31

SR(Ut)

EC G1

1 m

4.137

0.006

116

60

    

18

32

Bx

EC G1

1 m

3.794

0.009

127

90

    
 

33

SR(Ut)

EC G1

1 m

3.025

0.012

168

80

    
 

34

End LBC

EC

2 m

3.392

0.008

11

 

8043

20,911

27.8

*

19

35

SR(Ut)

EC G1 + Sq

2 m

4.585

0.004

105

30

    
 

36

End LBC

EC

4 m

16.984

0.000

26

 

7739

9261

45.5

 

20

37

Bx

EC G2

3y

0.492

0.022

168

60

    

21

38

Bx

EC G1

3 m

2.612

0.012

168

90

    
 

39

SR(Ut)

EC G1

1 m

1.321

0.025

154

90

    
 

40

End LBC

EC

3 m

16.114

0.005

36

 

16,855

10,739

61.1

 

22

41

Bx

EC G3

2y

1.024

0.022

168

40

    
 

42

End LBC

AGC

1 m

16.208

0.004

30

 

14,816

1019

93.6

 

23

43

Bx

AC

2 m

3.479

0.010

138

90

    
 

44

SR(Ut)

EC G2

2w

2.443

0.012

168

90

    
 

45

End LBC

EC

2 m

8.576

0.004

54

 

45,220

2537

94.7

 

24

46

Bx

EC

4 m

2.443

0.009

168

80

    
 

47

SR(Ut)

EC G1

2 m

5.058

0.005

95

80

    
 

48

SR(Ov)

EC G1

2 m

1.694

0.011

168

70

    
 

49

End LBC

AC

4 m

24.088

−0.001

31

 

21,930

6661

76.7

 
  1. SRsurgical resection,BxEndometrial biopsy,LBCliquid-based cytology,EndEndometrial,UtUterus,OmOmentumOvOvary,ECEndometrioid carcinoma,SCSerous carcinoma,CCCClear cell carcinoma,ACAdenocarcinoma,SqSquamous differentiation,DCDedifferentiated carcinoma,MaligMalignant cell,AGCAtypical glandular cell,AHAtypical hyperplasia,w, week,mmonthy, year
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BMC Medical Genomics

ISSN: 1755-8794

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