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Table 3 Genome methylation tallied over 1 kb tiled genome windows, by tissue

From: Methylome reorganization during in vitro dedifferentiation and regeneration of Populus trichocarpa

No. methylated 1 kb windows
By tissue RPKM NB Common
Internode explant 55, 036 92, 401 52, 566 (55.4%)
Callus 51, 886 81, 444 46, 863 (54.2%)
Regen internode 42, 511 63, 722 39, 384 (58.9%)
  1. Numbers are counts of windows called methylated compared to non-immunoprecipitated control by one of two methods: RPKM at a 1% false discovery rate, or negative binomial analysis (FDR of 10%). The P. trichocarpa genome is comprised of 378,536 windows. Percentage of common windows was calculated by dividing the total number of windows called by both methods by the total of those called by either method.
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BMC Plant Biology

ISSN: 1471-2229

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