Open Access Highly Accessed Methodology article

An R package "VariABEL" for genome-wide searching of potentially interacting loci by testing genotypic variance heterogeneity

Maksim V Struchalin1, Najaf Amin1, Paul HC Eilers2, Cornelia M van Duijn1 and Yurii S Aulchenko13*

Author Affiliations

1 Department of Epidemiology, Erasmus MC, Rotterdam, 3000 CA, The Netherlands

2 Department of Biostatistics, Erasmus MC, Rotterdam, 3000 CA, The Netherlands

3 Recombination and Segregation laboratory, Institute of Cytology and Genetics SD RAS, Novosibirsk, 630090, Russia

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BMC Genetics 2012, 13:4  doi:10.1186/1471-2156-13-4

Published: 24 January 2012

Additional files

Additional file 1:

Power to detect variance heterogeneity induced by interaction, assuming Normal distribution of residual error. The file contains the figure describing dependency of power to detect variance heterogeneity induced by interaction and the effect of interaction, βgF, using Levene's (circles) and SVLM (triangles) tests. The residual error follows Normal distribution. Scenarios with different frequencies of interacting allele are given in Panel A - 5%, Panel B - 40%, Panel C - 60%, and Panel D - 95%.

Format: PDF Size: 163KB Download file

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Additional file 2:

Power to detect variance heterogeneity induced by interaction, assuming <a onClick="popup('http://www.biomedcentral.com/1471-2156/13/4/mathml/M11','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2156/13/4/mathml/M11">View MathML</a>distribution of residual error. The file contains the figure describing dependency of power to detect variance heterogeneity induced by interaction and the effect of interaction, βgF, using Levene's (circles) and SVLM (triangles) tests. The residual error follows <a onClick="popup('http://www.biomedcentral.com/1471-2156/13/4/mathml/M12','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2156/13/4/mathml/M12">View MathML</a> distribution. Scenarios with different frequencies of interacting allele are given in Panel A - 5%, Panel B - 40%, Panel C - 60%, and Panel D - 95%.

Format: PDF Size: 170KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 3:

Power to detect variance heterogeneity induced by interaction, assuming <a onClick="popup('http://www.biomedcentral.com/1471-2156/13/4/mathml/M13','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2156/13/4/mathml/M13">View MathML</a> distribution of residual error. The file contains the figure describing dependency of power to detect variance heterogeneity induced by interaction and the effect of interaction, βgF, using Levene's (circles) and SVLM (triangles) tests. The residual error follows <a onClick="popup('http://www.biomedcentral.com/1471-2156/13/4/mathml/M14','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2156/13/4/mathml/M14">View MathML</a> distribution. Scenarios with different frequencies of interacting allele are given in Panel A - 5%, Panel B - 40%, Panel C - 60%, and Panel D - 95%.

Format: PDF Size: 171KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 4:

Optimal effect of the factor F (βF) as a function of the interaction effect (βgF). The file contains the figure showing the value of optimal effect of interacting factor F, βF, as a function of the effect of interaction, βgF for allele frequencies 5% (black), 40% (red), 60% (green) and 95% (yellow).

Format: PDF Size: 188KB Download file

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Open Data