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Table 4 Comparison of the number of reads assigned to the human and mouse genome using the ICRG, Disambiguate or Xenome

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

  ICRG Disambiguate Xenome
Data type % human % mouse Replicate Reads mapped as human Reads mapped as mouse Reads mapped as human Reads mapped as mouse Ambiguous reads Reads mapped as human Reads mapped as mouse
WES
  100 0 a 58,106,275 14,895 58,109,701 11,301 110,603 57,764,467 10,471
  100 0 b 39,554,955 12,132 39,557,693 9281 97,294 39,298,032 8847
  100 0 c 25,372,704 7216 25,374,460 5414 67,498 25,204,254 5359
  0 100 a 41,454 32,542,045 73,117 32,497,314 364,417 41,821 31,900,526
  0 100 b 39,132 31,217,211 70,693 31,173,450 366,702 39,238 30,586,007
  0 100 c 49,731 44,526,608 90,060 44,470,789 455,206 49,964 43,674,812
RNA-seq
  100 0 a 53,106,950 212,696 53,021,136 242,026 181,712 50,992,384 86,370
  100 0 b 56,450,410 232,876 56,364,238 260,810 212,462 54,219,538 84,236
  100 0 c 46,946,248 206,112 46,856,870 220,970 199,938 45,137,450 64,950
  0 100 a 1,510,196 39,721,816 1,353,926 39,543,932 428,688 875,920 38,259,766
  0 100 b 1,240,462 38,081,386 1,127,872 37,942,438 342,720 737,946 36,710,860
  0 100 c 1,611,790 44,442,932 1,457,070 44,267,370 446,048 956,948 42,837,414
  1. values in italic indicate the number of reads mapped to the correct genome
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BMC Genomics

ISSN: 1471-2164

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