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Table 4 Transposable element methylation increases through dedifferentiation and organogenesis for abundant elements

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

Type Explant Callus 5mc Regen 5mC
  5mC Index Index Index
Copia 65,660 193, 331 500, 473
Enspm - - 112, 738
Gypsy 130, 587 152, 883 499, 257
Ogre 8, 482 21, 455 65, 362
  1. Significant methylation enrichment was determined using the negative binomial method. Methylation index was calculated by dividing the number of methylation-enriched elements in each category by the total number in the genome, then multiplying this quantity by the total length in base pairs of all elements in that category.