Table 1.

Gene ontology of folate-regulated genes.

Gene set	Gene ontology	Genes	P-value	Enrichment
Genes downregulated (317 genes)	Regulation of nucleobase-containing compounds	47 Genes	0.0489	1.44
	Transcription from RNA polymerase II promotor	22 Genes	0.0226	1.85
	Intracellular protein kinase cascade	18 Genes	0.00276	2.34
	Detection of stimulus in sensory perception	7 Genes	2.6 × 10−5	5.72
	Ion channel activity	9 Genes	0.0397	2.35
	Gated channel activity	8 Genes	0.0202	2.72
	Double stranded DNA binding	5 Genes	0.0312	3.22
	MAPK signaling pathway	11 Genes	0.000968	3.58
Genes upregulated (89 genes)	Heparin binding	3 Genes	2.41 × 10−6	10.6

All genes that were differentially expressed in the deficient condition compared to the FA condition according to microarray analysis (fold change > 2 and P < 0.05) were analyzed with GeneCodis using all of the microarray probes as the background list. Two random lists of genes of the same size as the upregulated and two of the same size as the downregulated experimental lists were also run as controls for false positives in gene ontologies. Annotations are presented in this table if (a) the gene ontology represented a greater number of genes and a lower P-value than those resulting from a corresponding random list and (b) the annotations appeared to be relevant to this study. P-values were calculated by GeneCodis using Chi-square tests.