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Table 2 Alignment of RRBS data and CpG quantification

From: Computational approach to discriminate human and mouse sequences in patient-derived tumour xenografts

Sampler

HRG

ICRG

Common human CpGs (%)

Alignment efficiency (%)

n. of human CpGsa

Alignment efficiency (%)

Reads mapped to the human genome (%)

Reads mapped to the mouse genome (%)

n. of human CpGsa

n. of moue CpGsa

Case_1_Normal

72.2

2,317,726

72.2

99.9

0.1

2,315,989

102

99.9

Case_1_Tumuor

74.1

2,676,050

74.1

99.9

0.1

2,674,961

119

99.9

Case_1_PDTX3

71.5

3,560,299

73.8

96.8

3.2

3,556,996

223,997

99.9

Case_2_Normal

70.6

1,893,234

70.6

99.9

0.1

1,891,949

60

99.9

Case_2_Tumuor

71.2

2,071,412

72.1

98.8

1.2

2,070,098

452

99.9

Case_2_PDTX1

68.5

2,132,270

73.4

93.2

6.8

2,130,231

90,072

99.8

Case_3_PDTX2

67.4

2,620,064

70.8

95.2

4.8

2,617,504

99,418

99.8

Case_3_PDTX3

54.7

1,623,532

71.0

76.9

23.1

1,620,101

339,859

99.7

Case_4_PDTX1

73.1

2,812,733

75.0

97.4

2.6

2,811,314

47,455

99.9

Case_4_PDTX2

69.1

1,503,423

72.3

95.6

4.4

1,501,890

13,819

99.8

Case_4_PDTX3

71.1

1,468,861

74.0

96.1

3.9

1,467,659

24,082

99.9

Case_4_PDTX5

69.2

3,185,468

73.5

94.0

6.0

3,182,452

264,898

99.9

Case_5_Tumuor

72.8

3,004,752

72.8

99.9

0.1

3,003,290

87

99.9

Case_5_PDTX3

65.8

2,066,808

70.6

93.0

7.0

2,064,469

179,031

99.8

  1. acoverage > 5