Table 1

Peak calling, sensitivity (detection of peaks called in the benchmark) and specificity (off-target peaks not present in the benchmark)
Protocol & cell number / ChIP Bench’ New New New New New
2 x 107 2 x 107 2.5 x 106 5 x 105 1 x 105 2 x 104
Total number reads 13 402 262 13 798 839 14 136 243 16 693 519 15 601 563 56 904 707
Number unique, non-duplicate reads 6 011 891 7 0330 709 5 794 519 3 463 886 2 423 126 661 591
Number of peaks called (fraction relative to benchmark) 16 545 16 244 17 054 15 636 14 771 12 296
(1) (0.98) (1.03) (0.95) (0.89) (0.74)
Sensitivity relative to benchmark 1 0.93 0.96 0.89 0.85 0.69
Specificity relative to benchmark 1 0.94 0.93 0.95 0.97 0.98

Peaks were called using MACS, allowing no ambiguously mapping or duplicate reads.

Gilfillan et al.

Gilfillan et al. BMC Genomics 2012 13:645   doi:10.1186/1471-2164-13-645

Open Data