Why Is Most of the Genetic Variance for Complex Traits Undetected by Large Powerful Screens of Common Variants?

A saturated map of common genetic variants associated with human height

L Yengo, S Vedantam, E Marouli, J Sidorenko, E Bartell, S Sakaue, M Graff, AU Eliasen, Y Jiang, S Raghavan, J Miao, JD Arias, SE Graham, RE Mukamel, CN Spracklen, X Yin, SH Chen, T Ferreira, HH Highland, Y Ji

2022-10-27

Common single-nucleotide polymorphisms (SNPs) are predicted to collectively explain 40–50% of phenotypic variation in human height..

A multi-trait Bayesian method for mapping QTL and genomic prediction

KE Kemper, PJ Bowman, BJ Hayes, PM Visscher, ME Goddard

2018-03-24

Background: Genomic prediction and quantitative trait loci (QTL) mapping typically analyze one trait at a time but this may ignore..

Leveraging genetically simple traits to identify small-effect variants for complex phenotypes

KE Kemper, MD Littlejohn, T Lopdell, BJ Hayes, LE Bennett, RP Williams, XQ Xu, PM Visscher, MJ Carrick, ME Goddard

2016-11-03

Background: Polymorphisms underlying complex traits often explain a small part (less than 1 %) of the phenotypic variance (σ<sup>2..

Improved precision of QTL mapping using a nonlinear Bayesian method in a multi-breed population leads to greater accuracy of across-breed genomic predictions

KE Kemper, CM Reich, PJ Bowman, CJ Vander Jagt, AJ Chamberlain, BA Mason, BJ Hayes, ME Goddard

2015-04-17

Background: Genomic selection is increasingly widely practised, particularly in dairy cattle. However, the accuracy of current pre..

How old are quantitative trait loci and how widely do they segregate?

KE Kemper, BJ Hayes, HD Daetwyler, ME Goddard

2015-04-01

The mutations that cause genetic variation in quantitative traits could be old and segregate across many breeds or they could be y..

Selection for complex traits leaves little or no classic signatures of selection

KE Kemper, SJ Saxton, S Bolormaa, BJ Hayes, ME Goddard

2014-03-28

Background: Selection signatures aim to identify genomic regions underlying recent adaptations in populations. However, the effect..

Statistical Power to Detect Genetic (Co)Variance of Complex Traits Using SNP Data in Unrelated Samples

PM Visscher, G Hemani, AAE Vinkhuyzen, GB Chen, SH Lee, NR Wray, ME Goddard, J Yang

2014-01-01

We have recently developed analysis methods (GREML) to estimate the genetic variance of a complex trait/disease and the genetic co..

Evidence for pleiotropism and recent selection in the PLAG1 region in Australian Beef cattle

MRS Fortes, K Kemper, S Sasazaki, A Reverter, JE Pryce, W Barendse, R Bunch, R McCulloch, B Harrison, S Bolormaa, YD Zhang, RJ Hawken, ME Goddard, SA Lehnert

2013-12-01

A putative functional mutation (rs109231213) near PLAG1 (BTA14) associated with stature was studied in beef cattle. Data from 8199..

Additive genetic variation in schizophrenia risk is shared by populations of African and European descent

TR De Candia, SH Lee, J Yang, BL Browning, PV Gejman, DF Levinson, BJ Mowry, JK Hewitt, ME Goddard, MC O'Donovan, SM Purcell, D Posthuma, PM Visscher, NR Wray, MC Keller

2013-09-05

To investigate the extent to which the proportion of schizophrenia's additive genetic variation tagged by SNPs is shared by popula..

Inferring demography from runs of homozygosity in whole-genome sequence, with correction for sequence errors

IM MacLeod, DM Larkin, HA Lewin, BJ Hayes, ME Goddard

2013-09-01

Whole-genome sequence is potentially the richest source of genetic data for inferring ancestral demography. However, full sequence..

Estimation and partition of heritability in human populations using whole-genome analysis methods

AAE Vinkhuyzen, NR Wray, J Yang, ME Goddard, PM Visscher

2013-01-01

Understanding genetic variation of complex traits in human populations has moved from the quantification of the resemblance betwee..

FTO genotype is associated with phenotypic variability of body mass index

J Yang, RJF Loos, JE Powell, SE Medland, EK Speliotes, DI Chasman, LM Rose, G Thorleifsson, V Steinthorsdottir, R Mägi, L Waite, A Vernon Smith, LM Yerges-Armstrong, KL Monda, D Hadley, A Mahajan, G Li, K Kapur, V Vitart, JE Huffman

2012-10-11

There is evidence across several species for genetic control of phenotypic variation of complex traits, such that the variance amo..

Estimation of pleiotropy between complex diseases using single-nucleotide polymorphism-derived genomic relationships and restricted maximum likelihood

SH Lee, J Yang, ME Goddard, PM Visscher, NR Wray

2012-10-01

Genetic correlations are the genome-wide aggregate effects of causal variants affecting multiple traits. Traditionally, genetic co..

Understanding and predicting complex traits: Knowledge from cattle

KE Kemper, ME Goddard

2012-10-01

The genetic architecture of complex traits in cattle includes very large numbers of loci affecting any given trait. Most of these ..

Comparing linkage and association analyses in sheep points to a better way of doing GWAS

KE Kemper, HD Daetwyler, PM Visscher, ME Goddard

2012-08-01

Genome wide association studies (GWAS) have largely succeeded family-based linkage studies in livestock and human populations as t..

Long-term selection strategies for complex traits using high-density genetic markers

KE Kemper, PJ Bowman, JE Pryce, BJ Hayes, ME Goddard

2012-08-01

Selection of animals for breeding ranked on estimated breeding value maximizes genetic gain in the next generation but does not ne..

Genetic architecture of body size in mammals

KE Kemper, PM Visscher, ME Goddard

2012-04-30

Much of the heritability for human stature is caused by mutations of small-to-medium effect. This is because detrimental pleiotrop..

Conditional and joint multiple-SNP analysis of GWAS summary statistics identifies additional variants influencing complex traits

J Yang, T Ferreira, AP Morris, SE Medland, PAF Madden, AC Heath, NG Martin, GW Montgomery, MN Weedon, RJ Loos, TM Frayling, MI McCarthy, JN Hirschhorn, ME Goddard, PM Visscher

2012-04-01

We present an approximate conditional and joint association analysis that can use summary-level statistics from a meta-analysis of..

Estimating the proportion of variation in susceptibility to schizophrenia captured by common SNPs

SH Lee, TR Decandia, S Ripke, J Yang, PF Sullivan, ME Goddard, MC Keller, PM Visscher, NR Wray

2012-03-01

Schizophrenia is a complex disorder caused by both genetic and environmental factors. Using 9,087 affected individuals, 12,171 con..

A better coefficient of determination for genetic profile analysis.

SH Lee, ME Goddard, NR Wray, PM Visscher

2012-01-01

Genome-wide association studies have facilitated the construction of risk predictors for disease from multiple Single Nucleotide P..