ArticleAmerican journal of human genetics2004
Assessing whether an allele can account in part for a linkage signal: the Genotype-IBD Sharing Test (GIST).
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 29 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
29 citing papers in PubMed.
- A genome-wide scan for attention-deficit/hyperactivity disorder in 155 German sib-pairs.Molecular psychiatry · 2006Trial
- Complex pedigrees in the sequencing era: to track transmissions or decorrelate?Genetic epidemiology · 2014Article
- Combined linkage and family-based association analysis improves candidate gene detection in Genetic Analysis Workshop 18 simulation data.BMC proceedings · 2014Article
- A method to detect single-nucleotide polymorphisms accounting for a linkage signal using covariate-based affected relative pair linkage analysis.BMC proceedings · 2011Article
- Allelic variants of IL1R1 gene associate with severe hand osteoarthritis.BMC medical genetics · 2010Article
- Evaluation of approaches to identify associated SNPs that explain the linkage evidence in nuclear families with affected siblings.Human heredity · 2010Article
- Evidence for association with hepatocellular carcinoma at the PAPSS1 locus on chromosome 4q25 in a family-based study.European journal of human genetics : EJHG · 2009Article
- Allelic variants in HTR3C show association with autism.American journal of medical genetics. Part B, Neuropsychiatric genetics : the official publication of the International Society of Psychiatric Genetics · 2009Article
- Chromosome 17q12 variants contribute to risk of early-onset prostate cancer.Cancer research · 2008Article
- Evaluating the association of common PBX1 variants with type 2 diabetes.BMC medical genetics · 2008Article
- Exploring causality via identification of SNPs or haplotypes responsible for a linkage signal.Genetic epidemiology · 2007Article
- Association and linkage of allelic variants of the dopamine transporter gene in ADHD.Molecular psychiatry · 2007Article
- Common variation in the BRCA1 gene and prostate cancer risk.Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology · 2007Article
- IRAK-M is involved in the pathogenesis of early-onset persistent asthma.American journal of human genetics · 2007Article
- Residual linkage: why do linkage peaks not disappear after an association study?Human genetics · 2007Article
- Comparison of GIST and LAMP on the GAW15 simulated data.BMC proceedings · 2007Article
- Regional admixture mapping and structured association testing: conceptual unification and an extensible general linear model.PLoS genetics · 2006Article
- Cigarette smoking strongly modifies the association of LOC387715 and age-related macular degeneration.American journal of human genetics · 2006Article
- Genetics of type 2 diabetes.Current diabetes reports · 2006Review
- A quantitative linkage score for an association study following a linkage analysis.BMC genetics · 2006Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
Abstract
To fine map genes, investigators often test for disease-marker association in chromosomal regions with evidence for linkage. Given a marker allele tentatively associated with disease, one would ask if this allele, or one in linkage disequilibrium (LD) with it, could account in part for the observed linkage signal. This question can be addressed by determining if families selected on the basis of the presence of the tentatively associated allele show stronger evidence of linkage as measured by increased allele sharing identical by descent (IBD) by affected family members. However, common selection strategies can be biased for or against linkage in the marker region, even given no disease-marker association. We define unbiased selection schemes and extend the definition to allow weighted selection on the basis of all genotyped family members. For affected-sibship data, we describe three genotype-based weight variables, corresponding to dominant, recessive, and additive models. We then introduce a test for association of a family weight variable with excess IBD sharing. This test allows us to determine if the linkage signal in a region can be attributed in part to the presence of a marker allele, either because of direct involvement in disease etiology or because of LD with a predisposing genetic variant. For samples of 500 affected sib pairs, the tests are powerful in detection of genotype-IBD sharing association, even for disease models with sib relative risk as low as lambda S=1.1, or when evidence for linkage is absent because of sampling variation. This makes our method a new tool for detecting linkage as well as association, especially in regions harboring a candidate gene. We have implemented these methods in the software package GIST (Genotype-IBD Sharing Test).
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.