Pitfalls of predicting complex traits from SNPs (Q33896815)

29 July 2017

title

Pitfalls of predicting complex traits from SNPs (English)

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29 July 2017

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6

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29 July 2017

Jian Yang

2

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Ben Hayes

Ben J Hayes

3

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Michael Goddard

Michael E Goddard

5

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Naomi R. Wray

Naomi R Wray

1

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Alkes Price

4

Alkes L Price

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29 July 2017

language of work or name

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1 July 2013

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29 July 2017

published in

Nature Reviews Genetics

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29 July 2017

volume

14

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29 July 2017

issue

7

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29 July 2017

page(s)

507-515

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Population structure confounds autism genetic classifier

29 July 2017

cites work

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5 July 2018

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5 July 2018

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5 July 2018

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Comparison of heritabilities of dairy traits in Australian Holstein-Friesian cattle from genomic and pedigree data and implications for genomic evaluations.

5 July 2018

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5 July 2018

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Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease

5 July 2018

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5 July 2018

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Evidence of widespread selection on standing variation in Europe at height-associated SNPs

5 July 2018

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

5 July 2018

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5 July 2018

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5 July 2018

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Partitioning additive genetic variance into genomic and remaining polygenic components for complex traits in dairy cattle

5 July 2018

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SparSNP: fast and memory-efficient analysis of all SNPs for phenotype prediction.

5 July 2018

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Using whole-genome sequence data to predict quantitative trait phenotypes in Drosophila melanogaster

5 July 2018

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Genome-enabled prediction of genetic values using radial basis function neural networks

5 July 2018

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Estimating the genetic variance of major depressive disorder due to all single nucleotide polymorphisms

5 July 2018

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Alzheimer disease susceptibility loci: evidence for a protein network under natural selection

5 July 2018

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

5 July 2018

1 reference

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

5 July 2018

1 reference

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The Drosophila melanogaster Genetic Reference Panel

5 July 2018

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Five years of GWAS discovery

5 July 2018

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Predicting mutation outcome from early stochastic variation in genetic interaction partners.

5 July 2018

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A review of a multifactorial probability-based model for classification of BRCA1 and BRCA2 variants of uncertain significance (VUS).

5 July 2018

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Evaluation of polygenic risk scores for predicting breast and prostate cancer risk

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4096801

Beyond missing heritability: prediction of complex traits

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4096801

Genome partitioning of genetic variation for complex traits using common SNPs

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4096801

Risk prediction of complex diseases from family history and known susceptibility loci, with applications for cancer screening

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4096801

Genetic testing and common disorders in a public health framework: how to assess relevance and possibilities. Background Document to the ESHG recommendations on genetic testing and common disorders

5 July 2018

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Genomic inflation factors under polygenic inheritance

5 July 2018

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Estimating missing heritability for disease from genome-wide association studies

5 July 2018

1 reference

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GCTA: a tool for genome-wide complex trait analysis

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4096801

A commentary on 'common SNPs explain a large proportion of the heritability for human height' by Yang et al. (2010).

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4096801

Genetic risk sum score comprised of common polygenic variation is associated with body mass index

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4096801

Predicting genetic predisposition in humans: the promise of whole-genome markers

5 July 2018

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Hundreds of variants clustered in genomic loci and biological pathways affect human height

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4096801

Prediction of genetic values of quantitative traits in plant breeding using pedigree and molecular markers.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4096801

Predicting sensation seeking from dopamine genes. A candidate-system approach

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4096801

Common SNPs explain a large proportion of the heritability for human height

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4096801

Genetic variants at 2q24 are associated with susceptibility to type 2 diabetes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4096801

Performance of common genetic variants in breast-cancer risk models

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4096801

The genetic interpretation of area under the ROC curve in genomic profiling

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4096801

Association between a literature-based genetic risk score and cardiovascular events in women

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4096801

Cohorts for Heart and Aging Research in Genomic Epidemiology (CHARGE) Consortium: Design of prospective meta-analyses of genome-wide association studies from 5 cohorts

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4096801

From disease association to risk assessment: an optimistic view from genome-wide association studies on type 1 diabetes.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4096801

Bayesian statistical methods for genetic association studies

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4096801

Common polygenic variation contributes to risk of schizophrenia and bipolar disorder

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4096801

Harnessing the information contained within genome-wide association studies to improve individual prediction of complex disease risk

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4096801

Predicting quantitative traits with regression models for dense molecular markers and pedigree

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4096801

Invited review: Genomic selection in dairy cattle: progress and challenges

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4096801

5 July 2018

Maintaining evolvability

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Prediction model for prevalence and incidence of advanced age-related macular degeneration based on genetic, demographic, and environmental variables

5 July 2018

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Genotype score in addition to common risk factors for prediction of type 2 diabetes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4096801

Accuracy of predicting the genetic risk of disease using a genome-wide approach

5 July 2018

1 reference

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Genomic selection: prediction of accuracy and maximisation of long term response

5 July 2018

1 reference

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Heritability in the genomics era — concepts and misconceptions

5 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4096801

Natural selection has driven population differentiation in modern humans

5 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4096801

Discerning the ancestry of European Americans in genetic association studies

5 July 2018

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5 July 2018

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Combining evidence of natural selection with association analysis increases power to detect malaria-resistance variants

5 July 2018

1 reference

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Population structure and eigenanalysis

5 July 2018

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Principal components analysis corrects for stratification in genome-wide association studies

5 July 2018

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Predictive testing for complex diseases using multiple genes: fact or fiction?

5 July 2018

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Selection bias in gene extraction on the basis of microarray gene-expression data

5 July 2018

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Prediction of total genetic value using genome-wide dense marker maps

5 July 2018

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Bayesian inference analyses of the polygenic architecture of rheumatoid arthritis

5 July 2018

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Genomic and metabolic prediction of complex heterotic traits in hybrid maize

29 October 2018

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Predicting sensation seeking from dopamine genes: use and misuse of genetic prediction.

29 October 2018

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A de novo paradigm for mental retardation.

29 October 2018

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Efficient methods to compute genomic predictions

29 October 2018

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Mutation frequencies of X-linked mental retardation genes in families from the EuroMRX consortium.

29 October 2018

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

29 October 2018

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Improving accuracy of genomic predictions within and between dairy cattle breeds with imputed high-density single nucleotide polymorphism panels

29 October 2018

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Demonstrating stratification in a European American population

29 October 2018

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Understanding type 1 diabetes through genetics: advances and prospects

29 October 2018

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Polygenes, risk prediction, and targeted prevention of breast cancer

31 March 2020

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Rare-variant association testing for sequencing data with the sequence kernel association test

31 March 2020

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Comparison of statistical tests for association between rare variants and binary traits

31 March 2020

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Estimating Effects and Making Predictions from Genome-Wide Marker Data

31 March 2020

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Genetic risk prediction--are we there yet?

31 March 2020

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31 March 2020

Identifiers

DOI

10.1038/NRG3457

1 reference

Dimensions Publication ID

29 July 2017

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1 reference

29 July 2017

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