ArticleAmerican journal of human genetics2004
Bias toward the null hypothesis in model-free linkage analysis is highly dependent on the test statistic used.
Article in American journal of human genetics, 2004. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed.
- Cyproheptadine use in hepatocellular carcinoma.American journal of cancer research · 2017Article
- Statins and Renin Angiotensin System Inhibitors Dose-Dependently Protect Hypertensive Patients against Dialysis Risk.PloS one · 2016Article
- Heritability and linkage analysis of personality in bipolar disorder.Journal of affective disorders · 2013Article
- Heritability and genome-wide SNP linkage analysis of temperament in bipolar disorder.Journal of affective disorders · 2013Article
- Unifying ideas for non-parametric linkage analysis.Human heredity · 2011Article
- High-density genomewide linkage analysis of exceptional human longevity identifies multiple novel loci.PloS one · 2010Article
- Design considerations in a sib-pair study of linkage for susceptibility loci in cancer.BMC medical genetics · 2008Article
- One- and two-locus models for mapping rheumatoid arthritis-susceptibility genes on chromosome 6.BMC proceedings · 2007Article
- A genomewide linkage study of 1,933 families affected by premature coronary artery disease: The British Heart Foundation (BHF) Family Heart Study.American journal of human genetics · 2005Article
- Genomewide linkage study in 1,176 affected sister pair families identifies a significant susceptibility locus for endometriosis on chromosome 10q26.American journal of human genetics · 2005Article
- Weighting affected sib pairs by marker informativity.American journal of human genetics · 2005Article
- A genomewide search using an original pairwise sampling approach for large genealogies identifies a new locus for total and low-density lipoprotein cholesterol in two genetically differentiated isolates of Sardinia.American journal of human genetics · 2004Article
- No "bias" toward the null hypothesis in most conventional multipoint nonparametric linkage analyses.American journal of human genetics · 2004Article
- No bias in linkage analysis.American journal of human genetics · 2004Article
- Conventional multipoint nonparametric linkage analysis is not necessarily inherently biased.American journal of human genetics · 2004Article
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Abstract
Recently, it has been suggested that traditional nonparametric multipoint-linkage procedures can show a "bias" toward the null hypothesis of no effect when there is incomplete information about allele sharing at genotyped marker loci (or at positions in between marker loci). Here, I investigate the extent of this bias for a variety of test statistics commonly used in qualitative- ("affecteds only") and quantitative-trait linkage analysis. Through simulation and analytical derivation, I show that many of the test statistics available in standard linkage analysis packages (such as Genehunter, Merlin, and Allegro) are, in fact, not affected by this bias problem. A few test statistics--most notably the nonparametric linkage statistic and, to a lesser extent, the Aspex-MLS and Haseman-Elston statistics--are affected by the bias. Variance-components procedures, although unbiased, can show inflation or deflation of the test statistic attributable to the inclusion of pairs with incomplete identity-by-descent information. Results obtained--for instance, in genome scans--using these methods might therefore be worth revisiting to see if greater power can be obtained by use of an alternative statistic or by eliminating or downweighting uninformative relative pairs.
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