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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
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