Table 2.

Featured risk SNPs from the best-performing Elastic Net SNP model, UCLA ATLAS sample, stratified by genetic ancestry

rsID	CHR	POS	Variable Importance (percentage, 95% CI)	Nearest Gene	AD EUR	AD AFR	AD multi	LBD	PD	PSP	Stroke
Hispanic Latino American ancestry (HLA)
rs429358	19	44908684	0.088 (0.02, 0.143)	APOE		x
rs2075650	19	44892362	0.086 (0.02, 0.14)	TOMM40		x	x	x
rs483082	19	44912921	0.071 (0.019, 0.113)	APOC1		x	x
rs157581	19	44892457	0.06 (0.015, 0.097)	TOMM40		x		x
rs412776	19	44876259	0.059 (0.019, 0.099)	PVRL2	x		x
rs62120578	19	44713297	0.049 (0.021, 0.075)	CTB-171A8.1	x
rs4803765	19	44855191	0.045 (0.015, 0.076)	PVRL2	x
rs80100206	4	705856	0.044 (0.016, 0.083)	PCGF3					x
rs6857	19	44888997	0.038 (0.011, 0.068)	NECTIN2		x
rs2276412	11	121590137	0.032 (0.008, 0.062)	SORL1	x
rs2220427	4	110793733	0.031 (0.007, 0.056)	RP11-777N19.1							x
rs13067212	3	39404095	0.027 (0.004, 0.055)	RPSA						x
rs435380	19	44903861	0.026 (0.003, 0.063)	TOMM40		x	x
rs10422350	19	44725238	0.025 (0.005, 0.048)	snoZ6	x		x
rs1551890	19	44829875	0.023 (0.004, 0.046)	BCAM	x		x
African American ancestry (AA)
rs2627641	19	45205500	0.092 (0.05, 0.166)	BLOC1S3	x
rs8073976	17	44955857	0.077 (0.041, 0.128)	C1QL1						x
rs429358	19	44908684	0.065 (0.031, 0.111)	APOE		x
rs77283277	7	143386852	0.064 (0.03, 0.125)	ZYX	x
rs2075650	19	44892362	0.06 (0.028, 0.101)	TOMM40		x	x	x
rs13032148	2	127107524	0.057 (0.02, 0.107)	BIN1	x		x
rs73936967	19	44890485	0.056 (0.022, 0.101)	TOMM40		x
rs71352239	19	44926286	0.053 (0.023, 0.086)	APOC1P1	x		x	x
rs11223641	11	133950127	0.04 (0.012, 0.064)	IGSF9B					x
rs435380	19	44903861	0.035 (0.004, 0.073)	TOMM40		x	x

Abbreviations: AD, Alzheimer’s Disease; AFR, African American; CI, confidence interval; EUR, European; LBD, Lewy body dementia; PD, Parkinson’s disease; PRS, Polygenic Risk Score; PSP, progressive supranuclear palsy; SNP, Single-Nucleotide Polymorphism.

Note: SNPs marked in red are overlapped SNPs identified by both samples.