GRR: graphical representation of relationship errors

Abstract

GRR is available at http://bioinformatics.well.ox.ac.uk/GRR.

A genome-wide association study implicates diacylglycerol kinase eta (DGKH) and several other genes in the etiology of bipolar disorder

“…Cryptic relatedness was assessed by the use of the program GRR. 9 No cryptically-related individuals were detected. Population stratification was assessed using STRUCTURE 2.0, 10 under an admixture model with 20 000 burn-ins and 20 000 replicates.…”

Graphics for relatedness research

“…There are different ways to deal with this type of data as described below. First, we focus on the plot of means and standard deviations of the IBS counts (Abecasis et al, 2001). Second, we detail the plot of the proportions of the IBS counts (Rosenberg, 2006).…”

“…Abecasis et al (2001) proposed to compute the mean $false({\overline{x}}_{\mathit{ij}}false)$ and variance $false(s_{\mathit{ij}}^{2}false)$ over K genetic markers. The plot ${\overline{x}}_{\mathit{ij}}$ versus s ij reveals characteristic clusters that correspond to the different family relationships for a given population.…”

“…Graphics greatly facilitate the interpretation of the results of relatedness studies, and are increasingly being used (Abecasis et al, 2001, Rosenberg, 2006, Pemberton et al, 2010). The main aim of this article is to summarize the state of the art of the graphical methods used in relatedness research.…”

“…Relatedness investigations are based on allele sharing, and we will consider techniques that use IBS alleles as well as those using IBD alleles. A plot of the means against the standard deviations of the IBS counts is a powerful tool to detect relatedness (Abecasis et al, 2001). We explore this tool in detail and establish the domain of this graphic from a mathematical point of view.…”