Table 3. Gene Ontology (GO) enrichment among genes mapped by differentially methylated cytosines (DMCs).

‘Found’ indicates the number of different genes with the term that were mapped by DMCs. ‘Expected’ refers to the number of genes that were expected to be mapped by DMCs if six DMCs were randomly distributed.

GO.ID	Term	Found	Expected	p-value
GO:0070646	Protein modification by small protein removal	7	1.53	0.00083
GO:0016571	Histone methylation	10	3.07	0.00101
GO:0008284	Positive regulation of cell proliferation	5	0.8	0.00119
GO:0042732	D-xylose metabolic process	3	0.3	0.00321
GO:0006487	Protein N-linked glycosylation	5	1.03	0.0036
GO:0071702	Organic substance transport	25	11.89	0.00423
GO:0015691	Cadmium ion transport	2	0.11	0.00455
GO:0009834	Plant-type secondary cell wall biogenesis	3	0.35	0.00482
GO:0006306	DNA methylation	7	2.09	0.00492
GO:0006342	Chromatin silencing	8	2.86	0.00794
GO:0071705	Nitrogen compound transport	23	11.74	0.00931
GO:0050665	Hydrogen peroxide biosynthetic process	4	0.83	0.00945
GO:1905039	Carboxylic acid transmembrane transport	2	0.15	0.00945