The DOI matches its Crossref record; 12 of the 12 references it cites were found in a registry or an index.
The advantages and limitations of trait analysis with GWAS: a review
Open accessAbstract
Over the last 10 years, high-density SNP arrays and DNA re-sequencing have illuminated the majority of the genotypic space for a number of organisms, including humans, maize, rice and Arabidopsis. For any researcher willing to define and score a phenotype across many individuals, Genome Wide Association Studies (GWAS) present a powerful tool to reconnect this trait back to its underlying genetics. In this review we discuss the biological and statistical considerations that underpin a successful analysis or otherwise. The relevance of biological factors including effect size, sample size, genetic heterogeneity, genomic confounding, linkage disequilibrium and spurious association, and statistical tools to account for these are presented. GWAS can offer a valuable first insight into trait architecture or candidate loci for subsequent validation.
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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
Hindorff, L. A., Sethupathy, P., Junkins, H. A., Ramos, E. M., Mehta, J. P., Collins, F. S., & Manolio, T. A. (2009) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0903103106 · Cited by 4,013
Heritability in the genomics era — concepts and misconceptions
Visscher, P. M., Hill, W. G., & Wray, N. R. (2008) · Nature Reviews Genetics · doi:10.1038/nrg2322 · Cited by 1,921
Genome-wide association study of 107 phenotypes in Arabidopsis thaliana inbred lines
Atwell, S., Huang, Y. S., Vilhjálmsson, B. J., Willems, G., Horton, M., Li, Y., Meng, D., Platt, A., Tarone, A. M., Hu, T. T., et al. (2010) · Nature · doi:10.1038/nature08800 · Cited by 1,780
Detecting gene–gene interactions that underlie human diseases
Cordell, H. J. (2009) · Nature Reviews Genetics · doi:10.1038/nrg2579 · Cited by 1,350
Rare and common variants: twenty arguments
Gibson, G. (2012) · Nature Reviews Genetics · doi:10.1038/nrg3118 · Cited by 1,278
Gene–environment interactions in human diseases
Hunter, D. J. (2005) · Nature Reviews Genetics · doi:10.1038/nrg1578 · Cited by 1,132
Rare Variants Create Synthetic Genome-Wide Associations
Dickson, S. P., Wang, K., Krantz, I., Hakonarson, H., & Goldstein, D. B. (2010) · PLoS Biology · doi:10.1371/journal.pbio.1000294 · Cited by 857
Assessing the Impact of Transgenerational Epigenetic Variation on Complex Traits
Johannes, F., Porcher, E., Teixeira, F. K., Saliba-Colombani, V., Simon, M., Agier, N., Bulski, A., Albuisson, J., Heredia, F., Audigier, P., et al. (2009) · PLoS Genetics · doi:10.1371/journal.pgen.1000530 · Cited by 814
Genetic determinants of hair, eye and skin pigmentation in Europeans
Sulem, P., Gudbjartsson, D. F., Stacey, S. N., Helgason, A., Rafnar, T., Magnusson, K. P., Manolescu, A., Karason, A., Palsson, A., Thorleifsson, G., et al. (2007) · Nature Genetics · doi:10.1038/ng.2007.13 · Cited by 750 · cited 1×
“On the other hand, human disease states may in fact be a special class of traits driven by numerous small effect deleterious mutations, whereas, loci with intermediate effect size have been shown to underlie traits such as human eye and skin-colour [36,37].”
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Common garden experiments in the genomic era: new perspectives and opportunities
de Villemereuil, P., Gaggiotti, O. E., Mouterde, M., & Till-Bottraud, I. (2016) · Heredity · doi:10.1038/hdy.2015.93 · Cited by 384
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Des Roches, S., Pendleton, L. H., Shapiro, B., & Palkovacs, E. P. (2021) · Nature Ecology & Evolution · doi:10.1038/s41559-021-01403-5 · Cited by 253
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Wright, B. R., Farquharson, K. A., McLennan, E. A., Belov, K., Hogg, C. J., & Grueber, C. E. (2020) · Molecular Ecology Resources · doi:10.1111/1755-0998.13211 · Cited by 69
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Deciphering the impact of genetic variation on human polyadenylation using APARENT2
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Metadata
- Authors
- Korte, A., & Farlow, A.
- Venue
- Plant Methods
- Published
- 2013
- Volume
- 9
- Issue
- 1
- Pages
- 29
- ISSN
- 1746-4811 (ISSN-L)
- OpenAlex
- W2032457672
- Cited by
- 1,670
- References
- 12
- FWCI
- 31.76
- Type
- journal article
- Language
- en
- Open access
- gold
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