DESCRIPTION:
"We amassed a set of phenotype-specific GWAS summary statistics for different externalizing phenotypes, either by collecting existing results or by performing GWAS in UK Biobank (UKB) (Supplementary Information section 2). The multivariate method “genomic structural equation modelling” (Genomic SEM) was applied on a subset of the summary statistics (N = 53,293–1,251,809) deemed adequately heritable and statistically powered, in order to estimate a series of model specifications representing different genetic factor structures (Supplementary Information section 3). The best-fitting and most parsimonious solution (“the preferred model specification”) specified a single common genetic factor with seven indicator phenotypes (which we hereafter refer to as “the latent genetic externalizing factor”, or simply, “the externalizing factor”). The 7 phenotypes eventually used to estimate the latent genetic externalizing factor were (1) ADHD, (2) age at first sexual intercourse (FSEX), (3) problematic alcohol use (ALCP), (4) lifetime cannabis use (CANN), (5) lifetime smoking initiation (SMOK), (6) general risk tolerance (RISK), and (7) number of sexual partners (NSEX). We used an extension of MAGMA v1.08, “Hi-C coupled MAGMA” or “H-MAGMA” (version June 14, 2019), to assign non-coding (intergenic and intronic) SNPs to cognate genes based on their chromatin interactions. Exonic and promoter SNPs were assigned to genes based on physical position. We used four Hi-C datasets derived from adult brain, fetal brain, and iPSC derived neurons and astrocytes. We evaluated Bonferroni corrected P-value thresholds, adjusted for multiple testing within each analysis (one-sided P < 9.84×10–7). Displaying genes with P value less than 1E–5. From supplementary table 17."
LABEL:
H-MAGMA genes in adult brain from EXT GWAS_pvalue
SCORE TYPE:
P-Value
THRESHOLD:
<= 0.5
GENES IN THRESHOLD:
1997
DATE ADDED:
DATE UPDATED:
SPECIES:
AUTHORS:
TITLE:
JOURNAL:
ABSTRACT:
Genes in threshold: 1997
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