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Table 1 Gene functional enrichment analysis

From: Enhancer variants associated with Alzheimer’s disease affect gene expression via chromatin looping

GO Category Description Count % Log10(P) Log10(q)
GO:1902430 GO Biological Processes Negative regulation of amyloid-beta formation 3 2.38 -5.03 -0.94
GO:0007271 GO Biological Processes Synaptic transmission, cholinergic 4 3.17 -4.47 -0.91
R-HSA-1834949 Reactome Gene Sets Cytosolic sensors of pathogen-associated DNA 5 3.97 -4.34 -0.89
GO:0002768 GO Biological Processes Immune response-regulating cell surface receptor signaling pathway 11 8.73 -4.29 -0.89
GO:0072665 GO Biological Processes Protein localization to vacuole 4 3.17 -3.86 -0.8
GO:0006353 GO Biological Processes DNA-templated transcription, termination 5 3.97 -3.45 -0.59
GO:0016032 GO Biological Processes Viral process 13 10.32 -3.35 -0.53
GO:0007169 GO Biological Processes Transmembrane receptor protein tyrosine kinase signaling pathway 11 8.73 -2.74 -0.26
GO:0071466 GO Biological Processes Cellular response to xenobiotic stimulus 5 3.97 -2.62 -0.2
GO:0007127 GO Biological Processes Meiosis I 4 3.17 -2.36 -0.02
GO:0031329 GO Biological Processes Regulation of cellular catabolic process 11 8.73 -2.33 -0.02
R-HSA-5653656 Reactome Gene Sets Vesicle-mediated transport 10 7.94 -2.31 -0.01
M254 Canonical Pathways PID MYC REPRESS PATHWAY 3 2.38 -2.27 0
GO:0043547 GO Biological Processes Positive regulation of GTPase activity 7 5.56 -2.09 0
GO:0002274 GO Biological Processes Myeloid leukocyte activation 9 7.14 -2.06 0
  1. Terms with p-value < 0.01, minimum count 3, and enrichment factor > 1.5 (enrichment factor is the ratio between observed count and the count expected by chance) are collected and grouped into clusters based on their membership similarities