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Table 2 Genome methylation tallied over 1 kb tiled genome windows, with tissues pooled

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

No. methylated 1 kb windows

All tissues

RPKM

NB

Common

Methylated

33, 537

56, 861

30,727 (51.57%)

Unmethylated

261, 452

267, 876

239, 225 (82.5%)

Tissue specific

33, 921

44, 910

18, 755(31.2%)

Tissue-specific proportion

0,50

0.44

 
  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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