Genome-wide association study for variants that modulate relationships between cerebrospinal fluid amyloid-beta 42, tau, and p-tau levels

Table 3 Table of genome-wide significant G×G interactions with rQTL

Trait	rQTL	SNP2	Chrom	Location	Maj/Min (MAF)	p value	Gene	Left gene	Right gene
Aβ42	rs8027714	rs57134082	12	40057892	T/A (0.166)	< 5 × 10 ^–9	C12orf40	ABCD2	SLC2A13
tau	rs74025622	rs9817620 ^b	3	261440	T/C (0.062)	1.50 × 10 ^–8	CHL1	LOC642891	LOC402123
tau	rs74025622	rs73105331^a,b	7	52374812	C/T (0.031)	3.00 × 10^–8		LOC107986796	LOC107986738
tau	rs74025622	rs75034965^b	22	35710231	G/A (0.144)	3.75 × 10^–8	TOM1	HMGXB4	HMOX1
p-tau	rs689167	rs1558634	7	29553339	C/T (0.125)	1.00 × 10 ^–8	CHN2	NANOGP4	LOC646745
p-tau	rs79099429 ^a,c	rs79688703 ^b	16	7899349	T/C (0.059)	5.00 × 10 ^–9		RBFOX1	LOC105371069
p-tau	rs15205^a,c	rs79688703^b	16	7899349	T/C (0.059)	2.75 × 10^–8		RBFOX1	LOC105371069

p values based on 100 million parametric bootstraps
SNPs and p values in bold are significant after correcting for the number of independent and significant ptau/Aβ42 rQTL (p < 1 × 10⁻⁸); those underlined are significant after correcting for the tau/Aβ42 rQTL (p < 1.67 × 10⁻⁸); the rest are not mentioned in the text and are suggestive
Chrom Chromosome, G×G gene-by-gene, MAF minor allele frequency, Maj Major Allele, Min Minor Allele, rQTL relationship quantitative trait loci, SNP single nucleotide polymorphism
^aNominally significant for rate of decline
^bNominally significant for Aβ42 G×G
^cNominally significant for direct association with Aβ42