LodGWAS: a software package for genome-wide association analysis of biomarkers with a limit of detection

A. Vaez, P.J. Van Der Most, B.P. Prins, H. Snieder, E.R. Van Den Heuvel, B.Z. Alizadeh, I.M. Nolte

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3 Citations (Scopus)
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Abstract

Summary: Genome-wide association study (GWAS) of a biomarker is complicated when the assay procedure of the biomarker is restricted by a Limit of Detection (LOD). Those observations falling outside the LOD cannot be simply discarded, but should be included into the analysis by applying an appropriate statistical method. However, the problem of LOD in GWAS analysis of such biomarkers is usually overlooked. 'lodGWAS' is a flexible, easy-to-use R package that provides a simple and elegant way for GWAS analysis of such biomarkers while simultaneously accommodating the problem of LOD by applying a parametric survival analysis method. Availability and implementation: http://cran.r-project.org/web/packages/lodGWAS.

Original languageEnglish
Pages (from-to)1552-1554
Number of pages3
JournalBioinformatics
Volume32
Issue number10
DOIs
Publication statusPublished - 15 May 2016

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Genome-Wide Association Study
Biomarkers
Software Package
Software packages
Limit of Detection
Genome
Software
Genes
Association reactions
Parametric Analysis
Survival Analysis
Statistical method
Assays
Statistical methods
Availability

Cite this

Vaez, A. ; Van Der Most, P.J. ; Prins, B.P. ; Snieder, H. ; Van Den Heuvel, E.R. ; Alizadeh, B.Z. ; Nolte, I.M. / LodGWAS : a software package for genome-wide association analysis of biomarkers with a limit of detection. In: Bioinformatics. 2016 ; Vol. 32, No. 10. pp. 1552-1554.
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LodGWAS : a software package for genome-wide association analysis of biomarkers with a limit of detection. / Vaez, A.; Van Der Most, P.J.; Prins, B.P.; Snieder, H.; Van Den Heuvel, E.R.; Alizadeh, B.Z.; Nolte, I.M.

In: Bioinformatics, Vol. 32, No. 10, 15.05.2016, p. 1552-1554.

Research output: Contribution to journalArticleAcademicpeer-review

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