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2 edition of Family-based nonparametric tests of linkage and associations found in the catalog.

Family-based nonparametric tests of linkage and associations

Juan Pablo Lewinger

Family-based nonparametric tests of linkage and associations

by Juan Pablo Lewinger

  • 9 Want to read
  • 17 Currently reading

Published in 2004 .
Written in English


The Physical Object
Paginationx, 136 leaves.
Number of Pages136
ID Numbers
Open LibraryOL19514125M

Question: family based linkage study - design and analysis. 0. years ago by. User • Europe. User • wrote: Hello, We want to perform a linkage analysis study (using an Illumina SNP array) in a family affected with an autosomal dominant disorder. Sequencing and exome-chip technologies have motivated development of novel statistical tests to identify rare genetic variation that influences complex diseases. Although many rare-variant association tests exist for case-control or cross-sectional studies, far fewer methods exist for testing association in families. This is unfortunate, because cosegregation of rare variation and disease Cited by:

Chapter 10 Advanced Parametric Linkage Analysis (pages –): Silke Schmidt Chapter 11 Nonparametric Linkage Analysis (pages –): Elizabeth R. Hauser, Jonathan Haines and David E. Goldgar Chapter 12 Linkage Disequilibrium and Association Analysis (pages –): Eden R. Martin. ies. In a linkage study, the QTL heritability is defined as the ratio of the genetic variance attributable to a QTL to the total phenotypic variance. To obtain nonparametric estimation of age-specific heritabil-ity, we treat the subject-specific processes as random nonparametric curves and estimate their covariance function nonparametrically.

We used iterative association mapping to identify a susceptibility gene for age-related macular degeneration (AMD) on chromosome 10q26, which is one of the most consistently implicated linkage regions for this disorder. We employed linkage analysis methods, followed by family-based and case-control association analyses, using two independent data by: Keywords:Substance dependence, linkage analysis, association analysis, interaction analysis, meta-analysis, GCTA. Abstract: Background: Substantial substance use disorders and related health conditions emerged during the midth century and continue to represent Author: Tongtong Lan, Bo Yang, Xuefen Zhang, Tong Wang, Qing Lu.


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Family-based nonparametric tests of linkage and associations by Juan Pablo Lewinger Download PDF EPUB FB2

The large literature on family-based tests of association and/or linkage is reviewed, concentrating on the underlying principles and on recent methodological developments. In book: eLS, pp Family‐based linkage analysis in general is most powerful to detect genetic variants that have large effects on risk of a disease or variation of a quantitative trait Author: Joan E Bailey-Wilson.

Detection of association in the presence of linkage localizes the gene(s) of interest to more-refined regions in the genome than is possible through linkage analysis alone.

This strategy introduces a statistical complexity when family-based association tests are used: the marker genotypes among siblings are correlated in linked by: The idea of family-based QTL mapping comes from inheritance of marker alleles and its association with trait of interest has demonstrated how to use family-based association in plant breeding families.

Limitation of conventional methods. Traditional mapping populations include single family consisting of crossing between two parents or three parents often distantly related.

The yield from the analysis of these family-based genetic data can be enhanced by adopting computationally efficient and powerful statistical methods. We propose a general framework of a family-based U-statistic, referred to as family-U, for family-based association by: 2.

Hum. Genet. –, Family-Based Tests of Association in the Presence of Linkage Stephen L. Lake, 1Deborah Blacker,2,3 and Nan M. Laird Departments of 1Biostatistics and 2Epidemiology, Harvard School of Public Health, and 3Department of Psychiatry, Massachusetts General Hospital and Harvard Medical School, Harvard University, Boston.

We use the Genetic Analysis Workshop 14 simulated data to explore the effectiveness of a two-stage strategy for mapping complex disease loci consisting of an initial genome scan with confidence interval construction for gene location, followed by fine mapping with family-based tests of association on a dense set of single-nucleotide polymorphisms.

We considered four types of intervals: Cited by: 4. of linkage and association. Family-based designs require specialized analytic methods but they have distinct advantages: They are robust to confounding discuss family tests when parents are missing and/or for general pedigree designs.

Martin et al.(), Horvath and Laird (), and Lake et al.()describe methods for general. Family‐Based Methods for Linkage and Association Analysis.

Author links open overlay likelihood‐based approaches will often be more efficient than score tests or other nonparametric approaches, and offer the possibility of testing nested models, but their validity generally depends upon the correctness of the assumed likelihood model Cited by: Start studying Genetic Linkage and Genetic Association.

Learn vocabulary, terms, and more with flashcards, games, and other study tools. Tests whether a set of data favors or suggests two loci are linked or unlinked. (Statistical method). Linkage - use family studies. You sort of know the area of the affected gene.

Association. Abstract. Over the past decade, association studies based on linkage disequilibrium have become increasingly popular for detecting genetic variations underlying complex human diseases because association-based methods have been shown to have more power than traditional linkage-based methods in theoretical and empirical by:   Family-based association tests — FBAT and PDT.

Often, nuclear families with multiple affected and unaffected siblings are collected and used to carry out both genetic linkage and association Cited by:   Abstract. We use the Genetic Analysis Workshop 14 simulated data to explore the effectiveness of a two-stage strategy for mapping complex disease loci consisting of an initial genome scan with confidence interval construction for gene location, followed by fine mapping with family-based tests of association on a dense set of single-nucleotide by: 4.

Similarly, for DRD, inclusion of either covariate as a main effect does not improve the evidence for association by decreasing the P value, and there is no evidence of interaction effects by use of the global 2-df test.

For this allele, as for DAT, the HWSE weights for males and females were similar: μ m for males and μ f for by: family-based designs are robust against population substructure, and significant findings always imply both linkage and association. Furthermore, studies that use families offer a solution to the problems of model building and multiple-hypothesis testing, which are important issues in tests of association, and will.

Linkage and Family Based Studies based on detecting linkage and the second set is based on detecting associations. There is an ongoing debate about which kind of method is better. We will cover linkage analysis first and then follow with association analyses.

Keep in mind that linkage analysis requires genetic data on closely related. Detecting disease associations due to linkage disequilibrium using haplotype tags: Nonparametric tests for linkage with dependent sib pairs.

A review of family‐based tests for linkage disequilibrium between a quantitative trait and a genetic marker. Family-based association tests using genotype data with uncertainty ZHAOXIA YU∗ Department of Statistics, University of California, Irvine, CAUSA [email protected] SUMMARY Family-based association studies have been widely used to identify association.

Context Obsessive-compulsive disorder (OCD) is a debilitating familial psychiatric illness with associated brain abnormalities in the white matter. The gene for oligodendrocyte lineage transcription factor 2 (OLIG2) is an essential regulator in the development of cells that produce white matter (myelin).The OLIG2 gene is also highly expressed in brain regions implicated in by:   Linkage analysis is contrasted with family-based association analysis, in which unaffected family members serve as control individuals (in family-based association tests).Cited by:.

Linkage is defined in the context of transmission of genetic material from par-ents to offspring. It is defined to be the non-random co-inheritance of alleles at two loci. In terms of recombination, linkage between loci means that the recombination fraction is less than In contrast to linkage, LD is a population level concept.

Two loci. Celiac disease has a strong genetic association with HLA. However, this association only explains approximately half of the sibling risk for celiac disease. Therefore, other genes must be involved in susceptibility to celiac disease.

We tested for linkage to genes or loci that could play a role in pathogenesis of celiac disease. DNA samples, from members of 62 families with a minimum of two Cited by:   Case-control studies provide an important tool to test for the association between disease outcomes and genetic markers [1, 2].Family-based association studies take advantage of existing data, such as data from a previous linkage analysis [3, 4].Incorporation of covariates into the analysis should increase the power to detect by: 2.