MAPT and metabolic process: For instance, distal 22q11.2 CNVs increased risk for disorders of mineral metabolism (chr22:21,797,101–22,661,627; ORmirror = 0.02; 95%-CI [0.006; 0.083]; p = 9.9 × 10−9) and overlapped heel bone mineral density SNP-GWASs signals, while 3q29 CNVs increased Alzheimer’s disease risk (chr3:196,953,177–197,331,898; ORU-shape = 11.8; 95%-CI [4.0; 34.7]; p = 6.6 × 10−6) and overlapped with SNP-GWAS signal for PHF-tau levels, and suggestive signals (p < 5 × 10−6) for frontotemporal dementia and cognitive decline in Alzheimer’s disease.