IBC > e-Depot
e-Depot Synopsis
IBC 2013, doi: 10.4051/ibce.2013.4.0002
view 17164 | download 4330 | rating 6.0 | comment 0
Provisional manuscript (General)
Factor Analysis of Population Allele Frequencies as a Simple, Novel Method of Detecting Signals of Recent Polygenic Selection: The Example of Educational Attainment and IQ.
Davide Piffer1,*
1
Via Molina 15, 54033- Carrara (MS) Italy
*Corresponding author
received: November 16, 2013 ; accepted: November 26, 2013 ; published : November 27, 2013
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/3.0/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
Synopsis

Weak widespread (polygenic) selection is a mechanism that acts on multiple SNPs
simultaneously. The aim of this paper is to suggest a methodology to detect signals of
polygenic selection using educational attainment as an example. Educational attainment is a
polygenic phenotype, influenced by many genetic variants with small effects. Frequencies of
10 SNPs found to be associated with educational attainment in a recent genome-wide
association study were obtained from HapMap, 1000 Genomes and ALFRED. Factor analysis
showed that they are strongly statistically associated at the population level, and the resulting
factor score was highly related to average population IQ (r=0.90). Moreover, allele
frequencies were positively correlated with aggregate measures of educational attainment in
the population, average IQ, and with two intelligence increasing alleles that had been
identified in different studies. This paper provides a simple method for detecting signals of
polygenic selection on genes with overlapping phenotypes but located on different
chromosomes. The method is therefore different from traditional estimations of linkage
disequilibrium. This method can also be used as a tool in gene discovery, potentially
decreasing the number of SNPs that are included in a genome-wide association study,
reducing the multiple-testing problem and required sample sizes and consequently, financial
costs.

Keywords : polygenic, recent selection, educational attainment, intelligence, SNP, HapMap, 1000 genomes, race differences
Post-publication appraisal
Rate this manuscript
        Exceptional Highly recommended Recommended Fair Current rating: 6.0
Open discussion                       
(Open discussion is for 90 days after the initial publication)
:: Comments
Main text PDF(3367 KB)
References
Handling editor
- Keun Woo Lee
Author's Commentary
Export Citation
PubMed
- Davide Piffer
Google Scholar
- Davide Piffer
Interdisciplinary Bio Central (IBC) ISSN : 2005-8543 | Contact IBC//
All site content, except where otherwise noted, is licensed under a Creative Commons Attribution License.