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Table 1 Comparison of IHC, FISH and SNP data

From: High-density SNP arrays improve detection of HER2 amplification and polyploidy in breast tumors

 

IHC/FISH

SNP array

Tumor sample number

HER2 IHC

HER2 FISH

HER2 segment copy number

HER2/CEP17 ratio

HER2 copy number status

1

0

n/a

1,98

balance

normal

2

0

n/a

2,35

HER2+

amp*

3

0

1,92

1,81

balance

normal

4

0

n/a

2,06

balance

normal

5

0

n/a

2,04

balance

normal

6

0

n/a

1,72

cent+

del

7

0

n/a

1,67

balance

del

8

0

n/a

1,83

balance

normal

9

0

n/a

1,51

cent+

del

10

0

n/a

2,51

balance

amp*

11

0

n/a

1,78

balance

del

12

0

n/a

1,85

balance

normal

13

1

n/a

1,97

balance

normal

14

1

n/a

2,08

balance

normal

15

1

0,83

2,33

balance

amp*

16

1

0,80

1,70

balance

del

17

1

0,80

1,80

cent+

normal

18

1

0,86

2,49

balance

amp*

19

1

n/a

2,06

balance

normal

20

1

n/a

2,09

balance

normal

21

1

n/a

1,96

balance

normal

22

1

n/a

1,97

balance

normal

23

1

n/a

2,13

balance

normal

24

1

n/a

1,90

balance

normal

25

1

n/a

1,87

balance

normal

26

1

n/a

4,46

balance

amp*

27

1

n/a

2,34

balance

amp*

28

2

1,41

2,45

balance

amp*

29

2

1,54

2,16

balance

normal

30

2

3,05*

2,04

balance

normal

31

2

2,69*

2,48

balance

amp*

32

2

2,42*

1,75

cent+

del

33

2

1,73

1,99

balance

normal

34

2

2,65*

1,92

balance

normal

35

2

1,50

1,91

balance

normal

36

2

1,57

2,00

balance

normal

37

2

1,68

1,79

balance

del

38

2

1,90

1,84

balance

normal

39

2

1,60

2,05

balance

normal

40

2

1,58

1,89

balance

normal

41

2

2,13*

2,73

balance

amp*

42

2

1,54

2,04

balance

normal

43

2

1,82

1,54

balance

del

44

2

1,90

1,77

balance

del

45

2

1,66

2,33

balance

amp*

46

2

1,48

2,04

balance

normal

47

2

1,73

1,98

balance

normal

48

2

1,67

2,36

balance

amp*

49

2/3

0,93/8,8

11,10

HER2+

amp*

50

2

1,81

2,04

balance

normal

51

2

1,58

2,65

HER2+

amp*

52

2

1,60

2,23

balance

amp*

53

2

2,27*

8,03

HER2+

amp*

54

2

1,87

2,91

balance

amp*

55

2

1,24

2,66

balance

amp*

56

2

7,38*

7,01

HER2+

amp*

57

2

1,00

1,88

balance

normal

58

2

8,60*

7,98

HER2+

amp*

59

2

3,24*

3,18

HER2+

amp*

60

3*/1

1,65

2,00

balance

normal

61

3

4,11*

5,28

HER2+

amp*

62

3

7,00*

4,58

HER2+

amp*

63

3*/2

1,50

2,05

balance

normal

64

3*

n/a

3,15

HER2+

amp*

65

3*

1,35

3,75

HER2+

amp*

  1. Asterisk indicates HER2 positive results, while bold indicates samples that have been reanalyzed. Abbreviations: amp amplified CEP17 centromere on chromosome 17, del deletion, FISH fluorescent in situ hybridization, HER2 human epidermal growth factor receptor-2, IHC immunohistochemistry, n/a not analysed.
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BMC Cancer

ISSN: 1471-2407

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