ArticleAmerican journal of human genetics2000
Statistical tests for detection of misspecified relationships by use of genome-screen data.
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 171 papers, 5 of them syntheses that pooled it.
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
171 citing papers in PubMed, 5 syntheses or guidelines pooled it.
- Genome-Wide Linkage Study Meta-Analysis of Male Sexual Orientation.Archives of sexual behavior · 2021Pooled it
- Effects of multiple genetic loci on age at onset in late-onset Alzheimer disease: a genome-wide association study.JAMA neurology · 2014Pooled it
- Common variants at MS4A4/MS4A6E, CD2AP, CD33 and EPHA1 are associated with late-onset Alzheimer's disease.Nature genetics · 2011Pooled it
- Genome-wide association studies of the PR interval in African Americans.PLoS genetics · 2011Pooled it
- Genetic studies of stuttering in a founder population.Journal of fluency disorders · 2007Pooled it
- Ordered subset linkage analysis based on admixture proportion identifies new linkage evidence for alcohol dependence in African-Americans.Human genetics · 2013Trial
- Associations of polygenic risk scores for type 2 diabetes with metabolic measures in Pacific Islanders from Guam and Saipan.Journal of human genetics · 2026Article
- Repeated chip analysis for reducing the effect of genotyping errors on gene mapping for two recombinant inbred line populations in wheat (Triticum aestivum L.).BMC plant biology · 2025Article
- Deciphering distinct genetic risk factors for FTLD-TDP pathological subtypes via whole-genome sequencing.Nature communications · 2025Article
- Genetic variation and urine cadmium levels: ABCC1 effects in the Strong Heart Family Study.Environmental pollution (Barking, Essex : 1987) · 2021Article
- Fast and Accurate Shared Segment Detection and Relatedness Estimation in Un-phased Genetic Data via TRUFFLE.American journal of human genetics · 2019Article
- Joint Estimation of Pedigrees and Effective Population Size Using Markov Chain Monte Carlo.Genetics · 2019Article
- Genome-wide analyses as part of the international FTLD-TDP whole-genome sequencing consortium reveals novel disease risk factors and increases support for immune dysfunction in FTLD.Acta neuropathologica · 2019Article
- Statistical Methods and Software for Substance Use and Dependence Genetic Research.Current genomics · 2019Review
- A Log-Ratio Biplot Approach for Exploring Genetic Relatedness Based on Identity by State.Frontiers in genetics · 2019Article
- A genome-wide quantitative trait locus (QTL) linkage scan of NEO personality factors in Latino families segregating bipolar disorder.American journal of medical genetics. Part B, Neuropsychiatric genetics : the official publication of the International Society of Psychiatric Genetics · 2017Article
- Sex-specific linkage scans in opioid dependence.American journal of medical genetics. Part B, Neuropsychiatric genetics : the official publication of the International Society of Psychiatric Genetics · 2017Article
- HYSYS: have you swapped your samples?Bioinformatics (Oxford, England) · 2017Article
- The genetic basis of the comorbidity between cannabis use and major depression.Addiction (Abingdon, England) · 2017Article
- Genome-wide significant loci for addiction and anxiety.European psychiatry : the journal of the Association of European Psychiatrists · 2016Article
111 more citing papers are in PubMed but not listed here.
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
Misspecified relationships can have serious consequences for linkage studies, resulting in either reduced power or false-positive evidence for linkage. If some individuals in the pedigree are untyped, then Mendelian errors may not be observed. Previous approaches to detection of misspecified relationships by use of genotype data were developed for sib and half-sib pairs. We extend the likelihood calculations of Göring and Ott and Boehnke and Cox to more-general relative pairs, for which identity-by-descent (IBD) status is no longer a Markov chain, and we propose a likelihood-ratio test. We also extend the identity-by-state (IBS)-based test of Ehm and Wagner to nonsib relative pairs. The likelihood-ratio test has high power, but its drawbacks include the need to construct and apply a separate Markov chain for each possible alternative relationship and the need for simulation to assess significance. The IBS-based test is simpler but has lower power. We propose two new test statistics-conditional expected IBD (EIBD) and adjusted IBS (AIBS)-designed to retain the simplicity of IBS while increasing power by taking into account chance sharing. In simulations, the power of EIBD is generally close to that of the likelihood-ratio test. The power of AIBS is higher than that of IBS, in all cases considered. We suggest a strategy of initial screening by use of EIBD and AIBS, followed by application of the likelihood-ratio test to only a subset of relative pairs, identified by use of EIBD and AIBS. We apply the methods to a Genetic Analysis Workshop 11 data set from the Collaborative Study on the Genetics of Alcoholism.
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.