Table 1

Variability of LINE-1 methylation levels of DNA from cryo-preserved tissue

converted DNA samples

PCR 1 (% of methylation)

PCR 2 (% of methylation)

SD due to different PCR and different pyrosequencing

pyrosequencing 1

pyrosequencing 2

pyrosequencing 1

pyrosequencing 2

CpG site 1

CpG site 2

CpG site 3

CpG site 1

CpG site 2

CpG site 3

CpG site 1

CpG site 2

CpG site 3

CpG site 1

CpG site 2

CpG site 3

CpG site 1

CpG site 2

CpG site 3


A1

55.9

62.9

62.3

55.0

62.1

62.2

56.5

61.6

59.3

54.6

63.4

61.4

0.9

0.8

1.4

mean = 0.9

A2

53.1

63.1

59.7

56.0

63.3

59.5

53.2

62.7

60.0

57.5

62.3

60.5

2.2

0.4

0.4

A3

55.7

61.9

58.6

55.4

61.8

61.1

54.8

60.6

59.6

55.3

62.5

61.6

0.4

0.8

1.4

A4

54.1

63.8

60.7

56.4

63.6

59.9

56.4

63.7

60.3

55.8

64.1

59.6

1.1

0.2

0.5

B1

56.3

61.8

62.7

57.8

63.1

63.5

58.0

62.9

60.6

56.7

64.1

61.4

0.8

0.9

1.3

B2

55.9

63.4

62.9

57.9

64.0

63.2

55.2

63.1

62.5

58.6

64.7

63.3

1.6

0.7

0.4

bisulfite-to-bisulfite SD

1.3

0.8

1.8

1.2

0.9

1.7

1.7

1.1

1.1

1.5

0.9

1.2

mean = 1.3


SD between all measures of site 1

1.4%


SD between all measures of site 2

1.0%


SD between all measures of site 3

1.4%


The levels of methylation (%) of the three studied CpG sites are given according to the converted DNA sample analysed (A1 through B2) and for each condition of analysis (PCR and pyrosequencing). Numbers in bold italics indicate minimal values of methylation on all measures for each CpG site. Numbers in bold indicate maximal values of methylation on all measures for each CpG site

Tournier et al. BMC Cancer 2012 12:12   doi:10.1186/1471-2407-12-12

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