2.6.4 Association between DNA methylation and gene expression changes
To find transcripts that were both differentially methylated and differentially expressed between Cu-treated and control plants, i.e. potential associations between changes in DNA methylation and gene expression, we mapped the de novo reference to the de novotranscriptome using Blat 102 and intersected IDs of the mapped sequences with the IDs of the lists of DMPs and DETs for each population.