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Table 4 Effects of varying ratio of input control (C) to RNA pol II ChIP-seq (S) in MACS1.4 ChIP-seq peak calling.

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

C/S ratio 0 :1 0.5 : 1 1 : 1 1.5 : 1
#reads (S) 13,075,907 13,075,907 13,075,907 13,075,907
#reads (C) 0 6,222,374 12,443,567 18,673,093
#peaks 11474 9322 13350 13292
mean width 933.5906 1106.532 877.0872 881.8897
mean score 320.9228 457.1019 486.15 486.0935
  1. #reads was the total number of filtered reads passed into Bowtie2, "S" was the ChIP-seq sample, and "C" was the input control.