scholarly journals High-definition likelihood inference of genetic correlations across human complex traits

2020 ◽  
Vol 52 (8) ◽  
pp. 859-864 ◽  
Author(s):  
Zheng Ning ◽  
Yudi Pawitan ◽  
Xia Shen
2019 ◽  
Author(s):  
Yue Wu ◽  
Kathryn S. Burch ◽  
Andrea Ganna ◽  
Päivi Pajukanta ◽  
Bogdan Pasaniuc ◽  
...  

AbstractGenetic correlation is an important parameter in efforts to understand the relationships among complex traits. Current methods that analyze individual genotype data for estimating genetic correlation are challenging to scale to large datasets. Methods that analyze summary data, while being computationally efficient, tend to yield estimates of genetic correlation with reduced precision. We propose, SCORE, a randomized method of moments estimator of genetic correlation that is both scalable and accurate. SCORE obtains more precise estimates of genetic correlations relative to summary-statistic methods that can be applied at scale achieving a 50% reduction in standard error relative to LD-score regression (LDSC) and a 26% reduction relative to high-definition likelihood (HDL) (averaged over all simulations). The efficiency of SCORE enables computation of genetic correlations on the UK biobank dataset consisting of ≈ 300K individuals and ≈ 500K SNPs in a few hours (orders of magnitude faster than methods that analyze individual data such as GCTA). Across 780 pairs of traits in 291, 273 unrelated white British individuals in the UK Biobank, SCORE identifies significant genetic correlation between 200 additional pairs of traits over LDSC (beyond the 245 pairs identified by both).


2021 ◽  
Author(s):  
Lianne P. de Vries ◽  
Toos C. E. M. van Beijsterveldt ◽  
Hermine Maes ◽  
Lucía Colodro-Conde ◽  
Meike Bartels

AbstractThe distinction between genetic influences on the covariance (or bivariate heritability) and genetic correlations in bivariate twin models is often not well-understood or only one is reported while the results show distinctive information about the relation between traits. We applied bivariate twin models in a large sample of adolescent twins, to disentangle the association between well-being (WB) and four complex traits (optimism, anxious-depressed symptoms (AD), aggressive behaviour (AGG), and educational achievement (EA)). Optimism and AD showed respectively a strong positive and negative phenotypic correlation with WB, the negative correlation of WB and AGG is lower and the correlation with EA is nearly zero. All four traits showed a large genetic contribution to the covariance with well-being. The genetic correlations of well-being with optimism and AD are strong and smaller for AGG and EA. We used the results of the models to explain what information is retrieved based on the bivariate heritability versus the genetic correlations and the (clinical) implications.


Author(s):  
Valentin Hivert ◽  
Julia Sidorenko ◽  
Florian Rohart ◽  
Michael E. Goddard ◽  
Jian Yang ◽  
...  

2019 ◽  
Author(s):  
Gabriel Cuellar Partida ◽  
Joyce Y Tung ◽  
Nicholas Eriksson ◽  
Eva Albrecht ◽  
Fazil Aliev ◽  
...  

AbstractHandedness, a consistent asymmetry in skill or use of the hands, has been studied extensively because of its relationship with language and the over-representation of left-handers in some neurodevelopmental disorders. Using data from the UK Biobank, 23andMe and 32 studies from the International Handedness Consortium, we conducted the world’s largest genome-wide association study of handedness (1,534,836 right-handed, 194,198 (11.0%) left-handed and 37,637 (2.1%) ambidextrous individuals). We found 41 genetic loci associated with left-handedness and seven associated with ambidexterity at genome-wide levels of significance (P < 5×10−8). Tissue enrichment analysis implicated the central nervous system and brain tissues including the hippocampus and cerebrum in the etiology of left-handedness. Pathways including regulation of microtubules, neurogenesis, axonogenesis and hippocampus morphology were also highlighted. We found suggestive positive genetic correlations between being left-handed and some neuropsychiatric traits including schizophrenia and bipolar disorder. SNP heritability analyses indicated that additive genetic effects of genotyped variants explained 5.9% (95% CI = 5.8% – 6.0%) of the underlying liability of being left-handed, while the narrow sense heritability was estimated at 12% (95% CI = 7.2% – 17.7%). Further, we show that genetic correlation between left-handedness and ambidexterity is low (rg = 0.26; 95% CI = 0.08 – 0.43) implying that these traits are largely influenced by different genetic mechanisms. In conclusion, our findings suggest that handedness, like many other complex traits is highly polygenic, and that the genetic variants that predispose to left-handedness may underlie part of the association with some psychiatric disorders that has been observed in multiple observational studies.


2018 ◽  
Vol 20 (3) ◽  
pp. 173-190 ◽  
Author(s):  
Ekaterina A. Khramtsova ◽  
Lea K. Davis ◽  
Barbara E. Stranger
Keyword(s):  

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