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Table 2 Statistical test for DEG enrichment in eQTL genes

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

Dataset Brain region Samples Significant DEG Count DEG Count FER P-value
syn5550404 TC 160 61 122 1.245 0.006
CBE 159 47 122 1.080 0.060
GSE44770 PFC 230 44 96 1.097 0.059
VC 230 45 96 1.208 0.022
CBE 230 27 96 1.114 0.074
GSE5281 EC 23 39 118 1.419 0.004
HIP 23 31 118 1.212 0.041
MTG 28 44 118 1.125 0.048
PC 22 43 118 1.187 0.031
SFG 34 7 118 1.115 0.148
VC 31 2 118 1.982 0.187
  1. “Brain region” includes the following regions; TC Temporal cortex, CBE Cerebellum, PFC Prefrontal cortex, VC Visual cortex, EC Entorhinal cortex, HIP Hippocampus, MTG Medial temporal gyrus, SFG Superior frontal gyrus, PC Posterior cingulate. “Samples” indicates the number of samples in each dataset. “Significant DEG Count” indicates the number of signficantly differentially expressed genes in eQTL genes analyzed in each dataset (FDR<0.05). “DEG Count” indicates the number of eQTL genes analyzed in each dataset. “FER” indicates the number of the observed genes to the expected value. “P-value” were calculated from hypergeometic distribution test