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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.
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BMC Genomics

ISSN: 1471-2164

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