Childhood asthma is associated with COPD and known asthma variants in COPDGene: a genome-wide association study

Respiratory Research

Table 3 Top SNPs from childhood asthma GWAS in COPDGene^e

	Locus	SNP	Effect Allele	OR	Rsq	Freq (%)		P-value ^b,d	Gene Symbol	Gene Name
NHW ^a	9q32	rs59289606	A	2.06	0.38	20%		4.82E-08	KIAA1958
(8,900,203 SNPs)	5p13.3	rs439399	C	1.52	0.99	22%		3.90E-07	PDZD2	PDZ domain containing 2
AA ^a	12q13.13	rs7315121	T	2.90	0.45	7%		1.75E-07	FLJ12825	uncharacterized LOC440101
(15,374,350 SNPs)	7p21.3	rs56317450	A	2.11	0.79	8%		4.94E-07	PHF14	PHD finger protein 14
	Locus	SNP	Effect Allele	OR	Rsq NHW, AA	Freq (%) NHW, AA	I ²	P-value ^c,d	Gene Symbol	Gene Name
Meta-analysis (7,658,992 SNPs)	3q25.32-q25.33	rs4679858	G	1.48	0.99, 0.98	14%, 12%	0	2.39E-07	SCHIP1 IQCJ-SCHIP1	schwannomin interacting protein 1 & the readthrough

Abbreviations: GWAS genome-wide association study; NHW Non-Hispanic Whites; AA African American; SNP single nucleotide polymorphism; OR odds ratio of effect allele; Rsq estimation of imputation quality; Freq frequency of effect allele; I² heterogeneity index; ^a Each population was run as an independent analysis, and then combined in the meta-analysis: ^b Logistic regression based on case control status; ^c Fixed effect meta-analysis weighted by inverse variance. ^d Adjusted for sex, genetic ancestry. ^e Includes the top SNP from each region with GWAS P-value ≤1 × 10–6

ISSN: 1465-993X