Skip to main content

Table 9 Effects of ARK1_3738 ChIP-seq coverage levels on peak calling.

From: Evaluation of experimental design and computational parameter choices affecting analyses of ChIP-seq and RNA-seq data in undomesticated poplar trees

% of coverage 25% 40% 50% 75% 100%
#reads (S) 16,922,615 27,069,263 33,843,184 50,761,689 67,680,143
#reads (C) 17,112,375 27,388,564 34,232,969 51,341,520 68,470,396
#peaks 9991 12222 12959 14687 15683
mean width 552.914 686.6993 710.9952 854.1241 794.4457
mean score 349.4032 422.6096 458.1307 503.2893 535.8703
  1. #reads was the total number of filtered reads passed into Bowtie2, "S" was the ChIP-seq sample, and "C" was the input control.