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Table 2 Comparison of the cellular population structure (AD vs neuropath-free controls) from the brains in the Mayo Clinic and Mount Sinai Brain Bank

From: Genetic variants associated with Alzheimer’s disease confer different cerebral cortex cell-type population structure

  Brain regions Sample size Neuron Astrocyte Oligodendrocyte Microglia
   n Effect p value Effect p value Effect p value Effect p value
Mayo AD vs Control
CB 119 − 0.03 2.74 × 10−01 0.05 8.65 × 10−02 − 0.02 1.07 × 10−01 −3.19 × 10−04 9.19 × 10−01
TC 119 − 0.17 1.58 × 10−07 0.23 5.01 × 10−09 − 0.07 1.8 × 10−02 − 2.03 × 10−03 5.48 × 10−01
Mount Sinai Brain Bank AD vs Control
APC 184 − 0.04 8.14 × 10−04 0.06 8.11 × 10−05 − 0.01 3.36 × 10−02 − 3.18 × 10−03 1.12 × 10−02
STG 167 − 0.08 3.49 × 10−07 0.1 1.45 × 10−07 − 0.01 5.8 × 10−02 − 3.17 × 10−03 5.78 × 10−02
PHG 160 − 0.11 1.35 × 10−08 0.13 5.48 × 10−10 − 0.02 1.79 × 10−03 − 3.18 × 10−03 1.35 × 10−01
IFG 159 − 0.04 3.12 × 10−03 0.06 3.58 × 10−04 − 0.01 4.39 × 10−02 −3.98 × 10−03 1.64 × 10−02
Clinical Dementia Rating
APC 184 − 0.02 9.38 × 10−04 0.02 2.07 × 10−04 − 3.43 × 10−03 1.25 × 10−01 − 1.46 × 10−03 4.95 × 10−03
STG 167 − 0.03 1.87 × 10−06 0.04 3.33 × 10−07 − 0.01 2.1 × 10−02 −1.02 × 10−03 1.49 × 10−01
PHG 160 − 0.04 8.56 × 10−06 0.04 2.85 × 10−06 − 0.01 8.7 × 10−02 − 1.94 × 10−03 2.53 × 10−02
IFG 159 − 0.02 8.29 × 10−05 0.03 1.4 × 10−05 − 4.64 × 10−03 6.7 × 10−02 − 1.46 × 10−03 3.11 × 10−02
Braak staging
APC 173 − 0.01 1.21 × 10−02 0.01 1.27 × 10−03 − 3.09 × 10−03 2.77 × 10−02 − 7.04 × 10−04 3.12 × 10−02
STG 158 − 0.02 2.22 × 10−07 0.02 2.77 × 10−07 − 2.91 × 10−03 1.17 × 10−01 − 5.47 × 10−04 1.97 × 10−01
PHG 147 − 0.02 1.83 × 10−06 0.03 9.6 × 10−08 − 0.01 1.49 × 10−03 − 3.71 × 10−04 4.97 × 10−01
IFG 152 − 0.01 1.01 × 10−02 0.01 8.56 × 10−04 − 3.55 × 10−03 2.37 × 10−02 − 1.01 × 10−03 1.74 × 10−02
Mean amyloid plaques
APC 184 −1.88 × 10−03 3.6 × 10−03 2.82 × 10−03 1.03 × 10−04 − 7.99 × 10−04 2.13 × 10−03 − 1.46 × 10−04 1.72 × 10−02
STG 167 −4.2 × 10−03 7.73 × 10−08 0.01 4.63 × 10−08 − 6.08 × 10−04 9.01 × 10−02 − 2.04 × 10−04 1.5 × 10−02
PHG 160 − 4.96 × 10−03 5.05 × 10−09 0.01 1.26 × 10−10 − 9.99 × 10− 04 1.85 × 10−03 − 2.1 × 10−04 2.58 × 10−02
IFG 159 −2.58 × 10−03 3.82 × 10−04 3.53 × 10−03 1.96 × 10−05 − 7.41 × 10−04 1.51 × 10−02 − 2.04 × 10−04 1.26 × 10−02
  1. The cell-type proportions from AD cases and control were inferred from bulk RNA-seq using the ssNMF method. Effects of AD and associations with additional clinical and pathological phenotypes in cell-type distributions were estimated using linear regression model
  2. CB cerebellum, TC temporal cortex, APC anterior prefrontal cortex, SGT superior temporal gyrus, PHG parahippocampal gyrus, IFG inferior frontal gyrus