ArticleAmerican journal of human genetics2000
Linkage analysis in the presence of errors III: marker loci and their map as nuisance parameters.
Article in American journal of human genetics, 2000. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 44 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
44 citing papers in PubMed.
- An intronic variant in the CELF4 gene is associated with risk for colorectal cancer.Cancer epidemiology · 2021Article
- Rules for resolving Mendelian inconsistencies in nuclear pedigrees typed for two-allele markers.PloS one · 2017Article
- A large-scale candidate gene analysis of mood disorders: evidence of neurotrophic tyrosine kinase receptor and opioid receptor signaling dysfunction.Psychiatric genetics · 2013Article
- An allele of microtubule-associated protein 1A (Mtap1a) reduces photoreceptor degeneration in Tulp1 and Tub Mutant Mice.Investigative ophthalmology & visual science · 2012Article
- PSEUDOMARKER: a powerful program for joint linkage and/or linkage disequilibrium analysis on mixtures of singletons and related individuals.Human heredity · 2011Article
- Investigation of parent-of-origin effect in comitant strabismus using MOD score analysis.Molecular vision · 2009Article
- Genome-wide association scan for stature in Chinese: evidence for ethnic specific loci.Human genetics · 2009Article
- A genome-wide Asian genetic map and ethnic comparison: the GENDISCAN study.BMC genomics · 2008Article
- TCF7L2 is associated with high serum triacylglycerol and differentially expressed in adipose tissue in families with familial combined hyperlipidaemia.Diabetologia · 2008Article
- Trait components provide tools to dissect the genetic susceptibility of migraine.American journal of human genetics · 2006Article
- Bias of allele-sharing linkage statistics in the presence of intermarker linkage disequilibrium.BMC genetics · 2005Article
- Optimizing the evidence for linkage by permuting marker order.BMC genetics · 2005Article
- A male-specific quantitative trait locus on 1p21 controlling human stature.Journal of medical genetics · 2005Article
- Factors affecting statistical power in the detection of genetic association.The Journal of clinical investigation · 2005Review
- Association testing in a linked region using large pedigrees.American journal of human genetics · 2005Article
- Prospects for admixture mapping of complex traits.American journal of human genetics · 2005Review
- Fine mapping of 10q and 18q for familial Alzheimer's disease in Caribbean Hispanics.Molecular psychiatry · 2004Article
- Age-related maculopathy: a genomewide scan with continued evidence of susceptibility loci within the 1q31, 10q26, and 17q25 regions.American journal of human genetics · 2004Article
- Large-scale integration of human genetic and physical maps.Genome research · 2004Article
- On different approximations to multilocus identity-by-descent calculations and the resulting power of variance component-based linkage analysis.BMC genetics · 2003Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors.
Funding
Abstract
In linkage and linkage disequilibrium (LD) analysis of complex multifactorial phenotypes, various types of errors can greatly reduce the chance of successful gene localization. The power of such studies-even in the absence of errors-is quite low, and, accordingly, their robustness to errors can be poor, especially in multipoint analysis. For this reason, it is important to deal with the ramifications of errors up front, as part of the analytical strategy. In this study, errors in the characterization of marker-locus parameters-including allele frequencies, haplotype frequencies (i.e., LD between marker loci), recombination fractions, and locus order-are dealt with through the use of profile likelihoods maximized over such nuisance parameters. It is shown that the common practice of assuming fixed, erroneous values for such parameters can reduce the power and/or increase the probability of obtaining false positive results in a study. The effects of errors in assumed parameter values are generally more severe when a larger number of less informative marker loci, like the highly-touted single nucleotide polymorphisms (SNPs), are analyzed jointly than when fewer but more informative marker loci, such as microsatellites, are used. Rather than fixing inaccurate values for these parameters a priori, we propose to treat them as nuisance parameters through the use of profile likelihoods. It is demonstrated that the power of linkage and/or LD analysis can be increased through application of this technique in situations where parameter values cannot be specified with a high degree of certainty.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.