ArticlePLoS genetics2009
On quality control measures in genome-wide association studies: a test to assess the genotyping quality of individual probands in family-based association studies and an application to the HapMap data.
Article in PLoS genetics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
4 citing papers in PubMed.
- Genomic Prediction of Milk Fat Percentage Among Crossbred Cattle in the Indian Subcontinent.Animals : an open access journal from MDPI · 2025Article
- Families or Unrelated: The Evolving Debate in Genetic Association Studies.Journal of biometrics & biostatistics · 2012Article
- A simple and fast two-locus quality control test to detect false positives due to batch effects in genome-wide association studies.Genetic epidemiology · 2010Article
- A quality control algorithm for filtering SNPs in genome-wide association studies.Bioinformatics (Oxford, England) · 2010Article
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Authors and funding
3 authors.
Funding
Abstract
Allele transmissions in pedigrees provide a natural way of evaluating the genotyping quality of a particular proband in a family-based, genome-wide association study. We propose a transmission test that is based on this feature and that can be used for quality control filtering of genome-wide genotype data for individual probands. The test has one degree of freedom and assesses the average genotyping error rate of the genotyped SNPs for a particular proband. As we show in simulation studies, the test is sufficiently powerful to identify probands with an unreliable genotyping quality that cannot be detected with standard quality control filters. This feature of the test is further exemplified by an application to the third release of the HapMap data. The test is ideally suited as the final layer of quality control filters in the cleaning process of genome-wide association studies. It identifies probands with insufficient genotyping quality that were not removed by standard quality control filtering.
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