---
_id: '7736'
abstract:
- lang: eng
  text: We develop a novel approach to identify regions of the genome underlying population
    genetic differentiation in any genetic data where the underlying population structure
    is unknown, or where the interest is assessing divergence along a gradient. By
    combining the statistical framework for genome-wide association studies (GWASs)
    with eigenvector decomposition (EigenGWAS), which is commonly used in population
    genetics to characterize the structure of genetic data, loci under selection can
    be identified without a requirement for discrete populations. We show through
    theory and simulation that our approach can identify regions under selection along
    gradients of ancestry, and in real data we confirm this by demonstrating LCT to
    be under selection between HapMap CEU–TSI cohorts, and we then validate this selection
    signal across European countries in the POPRES samples. HERC2 was also found to
    be differentiated between both the CEU–TSI cohort and within the POPRES sample,
    reflecting the likely anthropological differences in skin and hair colour between
    northern and southern European populations. Controlling for population stratification
    is of great importance in any quantitative genetic study and our approach also
    provides a simple, fast and accurate way of predicting principal components in
    independent samples. With ever increasing sample sizes across many fields, this
    approach is likely to be greatly utilized to gain individual-level eigenvectors
    avoiding the computational challenges associated with conducting singular value
    decomposition in large data sets. We have developed freely available software,
    Genetic Analysis Repository (GEAR), to facilitate the application of the methods.
article_processing_charge: No
article_type: original
author:
- first_name: G-B
  full_name: Chen, G-B
  last_name: Chen
- first_name: S H
  full_name: Lee, S H
  last_name: Lee
- first_name: Z-X
  full_name: Zhu, Z-X
  last_name: Zhu
- first_name: B
  full_name: Benyamin, B
  last_name: Benyamin
- first_name: Matthew Richard
  full_name: Robinson, Matthew Richard
  id: E5D42276-F5DA-11E9-8E24-6303E6697425
  last_name: Robinson
  orcid: 0000-0001-8982-8813
citation:
  ama: 'Chen G-B, Lee SH, Zhu Z-X, Benyamin B, Robinson MR. EigenGWAS: Finding loci
    under selection through genome-wide association studies of eigenvectors in structured
    populations. <i>Heredity</i>. 2016;117:51-61. doi:<a href="https://doi.org/10.1038/hdy.2016.25">10.1038/hdy.2016.25</a>'
  apa: 'Chen, G.-B., Lee, S. H., Zhu, Z.-X., Benyamin, B., &#38; Robinson, M. R. (2016).
    EigenGWAS: Finding loci under selection through genome-wide association studies
    of eigenvectors in structured populations. <i>Heredity</i>. Springer Nature. <a
    href="https://doi.org/10.1038/hdy.2016.25">https://doi.org/10.1038/hdy.2016.25</a>'
  chicago: 'Chen, G-B, S H Lee, Z-X Zhu, B Benyamin, and Matthew Richard Robinson.
    “EigenGWAS: Finding Loci under Selection through Genome-Wide Association Studies
    of Eigenvectors in Structured Populations.” <i>Heredity</i>. Springer Nature,
    2016. <a href="https://doi.org/10.1038/hdy.2016.25">https://doi.org/10.1038/hdy.2016.25</a>.'
  ieee: 'G.-B. Chen, S. H. Lee, Z.-X. Zhu, B. Benyamin, and M. R. Robinson, “EigenGWAS:
    Finding loci under selection through genome-wide association studies of eigenvectors
    in structured populations,” <i>Heredity</i>, vol. 117. Springer Nature, pp. 51–61,
    2016.'
  ista: 'Chen G-B, Lee SH, Zhu Z-X, Benyamin B, Robinson MR. 2016. EigenGWAS: Finding
    loci under selection through genome-wide association studies of eigenvectors in
    structured populations. Heredity. 117, 51–61.'
  mla: 'Chen, G. B., et al. “EigenGWAS: Finding Loci under Selection through Genome-Wide
    Association Studies of Eigenvectors in Structured Populations.” <i>Heredity</i>,
    vol. 117, Springer Nature, 2016, pp. 51–61, doi:<a href="https://doi.org/10.1038/hdy.2016.25">10.1038/hdy.2016.25</a>.'
  short: G.-B. Chen, S.H. Lee, Z.-X. Zhu, B. Benyamin, M.R. Robinson, Heredity 117
    (2016) 51–61.
date_created: 2020-04-30T10:50:03Z
date_published: 2016-05-04T00:00:00Z
date_updated: 2021-01-12T08:15:11Z
day: '04'
doi: 10.1038/hdy.2016.25
extern: '1'
intvolume: '       117'
language:
- iso: eng
month: '05'
oa_version: None
page: 51-61
publication: Heredity
publication_identifier:
  issn:
  - 0018-067X
  - 1365-2540
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: 'EigenGWAS: Finding loci under selection through genome-wide association studies
  of eigenvectors in structured populations'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 117
year: '2016'
...