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Genome-wide association studies for complex traits: consensus, uncertainty and challenges
Abstract
The past year has witnessed substantial advances in understanding the genetic basis of many common phenotypes of biomedical importance. These advances have been the result of systematic, well-powered, genome-wide surveys exploring the relationships between common sequence variation and disease predisposition. This approach has revealed over 50 disease-susceptibility loci and has provided insights into the allelic architecture of multifactorial traits. At the same time, much has been learned about the successful prosecution of association studies on such a scale. This Review highlights the knowledge gained, defines areas of emerging consensus, and describes the challenges that remain as researchers seek to obtain more complete descriptions of the susceptibility architecture of biomedical traits of interest and to translate the information gathered into improvements in clinical management.
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“As yet, the function of most variants identified in GWASs is unknown, and most of these variants reside outside of coding sequence (9).”
From The N342S MYLIP polymorphism is associated with high total cholesterol and increased LDL receptor degradation in humans (2011) · cites this paper as [9]
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“Each study was first subject to GWAS quality control filters (customized taking into account study specific features21 as detailed in Supplementary Table 2) and standardized to the HapMap reference panel and statistical genotype imputation22–25.”
From Seven new loci associated with age-related macular degeneration (2013) · cites this paper as [21]
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Analysis and application of European genetic substructure using 300 K SNP information
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Transferability of tag SNPs in genetic association studies in multiple populations
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Genome‐wide significance for dense SNP and resequencing data
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WGAViewer: Software for genomic annotation of whole genome association studies: Figure 1.Preprint
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The scandal of poor epidemiological research: ***
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Self-citationRequired sample size and nonreplicability thresholds for heterogeneous genetic associations
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A Method to Address Differential Bias in Genotyping in Large-Scale Association Studies
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GEL: a novel genotype calling algorithm using empirical likelihood
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Self-citationThe Evidence for Prostate Cancer Risk Loci at 8q24 Grows Stronger
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1 of the 128 references couldn’t be matched to a known paper.
Research works printed but not linked: 2
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- Loos, R. J. F. et al. Association studies involving over 90,000 people demonstrate that common variants near to MC4R influence fat mass, weight and risk of obesity. Nature Genet. (in the press).
Cited by
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Finding the missing heritability of complex diseases
Manolio, T. A., Collins, F. S., Cox, N. J., Goldstein, D. B., Hindorff, L. A., Hunter, D. J., McCarthy, M. I., Ramos, E. M., Cardon, L. R., Chakravarti, A., et al. (2009) · Nature · doi:10.1038/nature08494 · Cited by 8,336
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Metadata
- Authors
- McCarthy, M. I., Abecasis, G. R., Cardon, L. R., Goldstein, D. B., Little, J., Ioannidis, J. P. A., & Hirschhorn, J. N.
- Affiliations
- Centre for Human Genetics (GB)
- University of Michigan (US)
- Duke University (US)
- University of Ottawa (CA)
- Tufts University (US)
- Broad Institute (US)
- Corresponding author
- McCarthy, Mark I.
- ORCID
- Venue
- Nature Reviews Genetics
- Published
- 2008-05
- Volume
- 9
- Issue
- 5
- Pages
- 356-369
- ISSN
- 1471-0056 (ISSN-L)
- 1471-0064
- OpenAlex
- W2041467022
- Cited by
- 2,891
- References
- 128
- Citations by year
- 2026: 38 · 2025: 57 · 2024: 90 · 2023: 68 · 2022: 61 · 2021: 85 · 2020: 94 · 2019: 129 · 2018: 127 · 2017: 160 · 2016: 170 · 2015: 171 · 2014: 200 · 2013: 235 · 2012: 257
- FWCI
- 29.53
- Type
- journal article
- Language
- en
- Open access
- closed
- Licence
- www.springer.com/tdm (tdm)
- Locations
- Nature Reviews Genetics (publishedVersion)
- PubMed (publishedVersion)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic Associations and Epidemiology
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic Mapping and Diversity in Plants and Animals
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic and phenotypic traits in livestock
- Keywords
- genome-wide association study, complex traits, disease susceptibility loci, multifactorial traits, common diseases, genetic basis of disease, clinical translation
- MeSH terms
- Alleles, Animals, Humans, Genetic Variation, Genome, Human, Quantitative Trait, Heritable, Genetic Predisposition to Disease, Genetic Diseases, Inborn, Quantitative Trait Loci
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