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Table 3 Pathways enriched in the EW_dmGWAS module genes (Asian dataset)

From: An integrative, genomic, transcriptomic and network-assisted study to identify genes associated with human cleft lip with or without cleft palate

Pathway IDPathway namePathway size*# informative genes$Adjusted p-value#
GO Biological Process
 GO:2001233Regulation of apoptotic signaling pathway385261.9 × 10−7
 GO:0043062Extracellular structure organization400236.0 × 10−5
 GO:0043254Regulation of protein complex assembly447241.1 × 10−4
 GO:0007409Axonogenesis449241.2 × 10−4
 GO:1901653Cellular response to peptide358212.0 × 10−4
 GO:0031589Cell-substrate adhesion332202.7 × 10−4
 GO:0060627Regulation of vesicle-mediated transport499248.5 × 10−4
 GO:0002237Response to molecule of bacterial origin330191.2 × 10−3
 GO:0050730Regulation of peptidyl-tyrosine phosphorylation244162.1 × 10−3
 GO:0002521Leukocyte differentiation496233.0 × 10−3
 GO:0034330Cell junction organization285173.3 × 10−3
 GO:0006914Autophagy473225.1 × 10−3
 GO:0051123RNA polymerase II preinitiation complex assembly2566.1 × 10−3
 GO:0038179Neurotrophin signaling pathway3976.1 × 10−3
 GO:0070482Response to oxygen levels337187.7 × 10−3
KEGG pathway
 hsa05203Viral carcinogenesis201222.6 × 10−7
 hsa05165Human papillomavirus infection339261.4 × 10−5
 hsa04728Dopaminergic synapse131120.014
 hsa04215Apoptosis3260.023
  1. *Pathway size: the total number of genes in the GO term or KEGG pathway
  2. $The observed number of genes from the module gene list
  3. #Bonferroni method was used to adjust p-value