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Table 2 Biological pathways identified by pathway analysis of the differentially methylated genes in ATR-X

From: Identification of epigenetic signature associated with alpha thalassemia/mental retardation X-linked syndrome

Biological pathway Biosynthetic process Nucleic acid metabolic process Methylation process
Number of genes in group 14 12 3
Fisher’s exact enrichment score −ln(p value) 5.9 4.6 4.6
Fisher’s exact right-tail p value <0.01 0.01 0.01
Genes DPPA4 PPAP2C ZNF274 ATF7IP2 PRDM9
ZNF718 ZNF486 CTDP1 ZNF486 BHMT2
PRDM9 ZNF274 TFB2M ZNF300 TFB2M
BHMT2 TFB2M QKI DPPA4  
ZNF300 ATF7IP2 ZNF718 ZNF248  
QKI CTDP1 UBE2U PRDM9  
ZNF248 ALG10B    
  1. Pathway analysis was performed with differentially methylated regions using cutoff of estimate > ±0.15, p < 0.01, F > 50 and probes >3