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

Table 2 Number of methylated 1 kb windows called by three methods.

Number of 1 kb windows in each of seven tissues (bud, male catkin, female catkin, leaf, root, phloem, xylem) called methylated using RPKM cutoff (1% FDR), cumulative Poisson probability distribution (CPPD), or a negative binomial analysis (NB). "Common" refers to the number of 1 kb windows called methylated by all three of the analytic methods. Percent agreement NB refers to the percent of windows called by the NB method that were also in common with those called by both RPKM and CPPD. Tissue specific proportion is proportion of tissue-specific called windows as a fraction of all the windows in the genome that were found to be methylated in any tissues.

ISSN: 1471-2164