PSCAN: Spatial scan tests guided by protein structures improve complex disease gene discovery and signal variant detection

Table 3 Genes significantly associated with AD in at least one test on the ADSP

Gene	Pval PSCAN-M	Pval PSCAN-V	Pval SCAN1D-M	Pval SCAN1D-V	Pval Burden	Pval SKAT	#SNP Total	#Signal SNP in (PSCAN-M,-V), (SCAN1D-M,-V), SV
BCAM	1.2×10⁻⁹	8.1×10⁻¹⁰	1.6×10⁻⁹	5.3×10⁻¹⁰	1.4×10⁻⁷	8.4×10⁻¹⁰	81	(2,2), (5,5), 2
CBLC	7.3×10⁻⁷	2.0×10⁻⁷	4.1×10⁻⁸	1.7×10⁻⁷	8.1×10⁻⁷	4.3×10⁻⁸	36	(8,8), (5,5), 1
CBX3	1.2×10⁻⁵	4.1×10⁻⁵	9.7×10⁻⁵	4.3×10⁻⁵	1.9×10⁻⁵	4.1×10⁻⁵	6	(4,4), (5,2), 1
SORL1	1.2×10⁻⁵	5.5×10⁻⁴	3.2×10⁻⁵	4.8×10⁻⁴	2.1×10⁻⁵	2.2×10⁻²	214	(34,1), (60,7), 0
TREM2	2.5×10⁻¹¹	8.4×10⁻¹¹	3.0×10⁻¹¹	3.2×10⁻⁸	7.8×10⁻¹¹	3.6×10⁻¹⁰	44	(2,1), (27,23), 1

The association test p-values and the numbers of identified signal variants at α=0.05/5=0.01 level are presented

ISSN: 1474-760X