Dynamic DNA cytosine methylation in the Populus trichocarpa genome: tissue-level variation and relationship to gene expression

Table 3 Statistical comparision of called methylated 1 kb windows between tissues.

	Male catkin	Female catkin	Leaf	Root	Xylem	Phloem	Bud
Male catkin	63,136	0.27	0.32	0.53	0.51	0.32	0.32
Fem. catkin	0.50	74,568	0.39	0.49	0.62	0.42	0.23
Leaf	0.33	0.18	63,207	0.36	0.42	0.13	0.12
Root	0.30	0.17	0.20	42,548	0.44	0.23	0.07
Xylem	0.19	0.13	0.14	0.34	34,174	0.05	0.11
Phloem	0.31	0.17	0.17	0.41	0.32	71,652	0.12
Bud	0.59	0.30	0.41	0.44	0.67	0.48	88,975

Differences among tissues were examined by generating all possible pairwise comparisons in 1 kb read-count windows using the CPPD method. Each entry is the ratio of the number of differentially methylated windows in the comparison (row tissue compared to column tissue) divided by the sum of the union of the methylated windows in either tissue compared to input. The total number of methylated windows in each tissue is shown on the diagonal.

ISSN: 1471-2164