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

Table 10 Summary of ChIP-seq sequencing datasets.

File	# of raw reads	# of reads after scythe and sickle	% of uniquely mapped reads	% of multiply mapped reads
Pt_Input	114,312,040	103,734,004	45.04	28.98
IgG_r1	9,649,641	9,439,338	41.63	28.70
IgG_r2	29,580,452	28,238,882	52.56	33.13
Pt_RNA pol II_r1	13,436,432	13,075,907	43.38	13.38
Pt_RNA pol II_r2	19,877,305	15,313,223	61.69	27.72
ARK1_3738_r1	25,221,831	22,778,470	42.05	21.69
ARK1_3738_r2	75,397,188	67,680,143	53.61	25.47
ARK1_3940_r1	47,192,418	36,767,421	12.50	11.28
ARK1_3940_r2	30,058,970	27,579,626	36.06	32.72

ISSN: 1471-2164