Effect of linkage disequilibrium between markers in linkage and association analyses.

Effect of linkage disequilibrium between markers in linkage and association analyses. Research Abstract Details 

Research Abstract Table of Contents

Jump to the:

Effect of linkage disequilibrium between markers in linkage and association analyses. Abstract Text:

Dupuis,Kees Albers,Kristina Allen-Brady,Kelly Cho,Robert C Elston,Hilbert J Kappen,Hua Tang,Alun Thomas,Glenys Thomson,Eric Tsung,Qiong Yang,Weihua Zhang,Keyan Zhao,Gang Zheng,Julie T Ziegler,

Contributions to Group 17 of the Genetic Analysis Workshop 15 considered dense markers in linkage disequilibrium (LD) in the context of either linkage or association analysis. Three contributions reported on methods for modeling LD or selecting a subset of markers in linkage equilibrium to perform linkage analysis. When all markers were used without modeling LD, inflated evidence for linkage was observed when parental genotypes were missing. All methods for handling LD led to some decreased linkage evidence. Two groups performed a genome-wide association scan using either mixed models to account for known or unknown relatedness between individuals, trend tests or combination statistics. All methods failed to detect four of the eight simulated loci because of low LD in some regions. Three groups performed association analysis using simulated dense markers on chromosome 6, where a simulated HLA-DRB1 locus played a major role in disease susceptibility along with two additional loci of smaller effect. The overall conditional genotype method correctly identified both additional loci while a novel transmission disequilibrium test-statistic to combine studies with non-overlapping markers identified one HLA locus after stratifying on the parental HLA-DRB1 genotypes; LD mapping using the Malécot model mapped two loci in this region, even when using greatly reduced marker density. While LD between markers appears to be a nuisance that may cause spurious linkage results with missing parental genotypes in linkage analysis, association analysis thrives on LD, and disease genes fail to be detected in regions of low LD.

Effect of linkage disequilibrium between markers in linkage and association analyses. Publishing Authors By Initials

J Dupuis,K Albers,K Allen-Brady,K Cho,RC Elston,HJ Kappen,H Tang,A Thomas,G Thomson,E Tsung,Q Yang,W Zhang,K Zhao,G Zheng,JT Ziegler,

For similar abstracts research abstracts see: abstracts research

PUBMED ID PMID:

MEDLINE DATE:

Effect of linkage disequilibrium between markers in linkage and association analyses. Journal Published:

PUBLICATION TYPE: Journal Article

Journal: Genetic epidemiology

VOLUME: 31 Suppl 1

Page Numbers: S139-48

Journal Abbreviation: Genet. Epidemiol.

ISSN: 0741-0395

DAY: 6

MONTH: 12

YEAR: 2007

Effect of linkage disequilibrium between markers in linkage and association analyses. Information

Number of References:

LANGUAGE: eng

NlmUniqueID: 8411723

Effect of linkage disequilibrium between markers in linkage and association analyses. Keywords Mesh Terms:

KEYWORDS:

MESH TERMS:

Chemical & Substance for Abstract: Effect of linkage disequilibrium between markers in linkage and association analyses. Information

Substance Name:

Registry Number:

Grant and Affiliation Information for Effect of linkage disequilibrium between markers in linkage and association analyses.

AFFILIATION: Department of Biostatistics, Boston University School of Public Health, 715 Albany Street, Boston, MA 02118, USA. dupuis@bu.edu

Country: United States

AGENCY:

GRANT:

ACRONYM:

MEDLINETA: Genet Epidemiol

REFSOURCE:

DATABASENAME:

ACCESSION NUMBER:

Number Hits: 0

Effect of linkage disequilibrium between markers in linkage and association analyses Related Publications

• A Double Multilayer Monochromator at an ESRF Undulator for Microbeam Experiments.
• Are plasma citrulline and glutamine biomarkers of intestinal absorptive function in patients with short bowel syndrome?
• Clinical cardiac catheterization in infants and children.
• Complicated appendicitis in children: a clear role for drainage and delayed appendectomy.
• Development and pilot evaluation of novel genetic educational materials designed for an underserved patient population.
• Ductal carcinoma in situ in BRCA mutation carriers.
• Epinephrine is required for normal cardiovascular responses to stress in the phenylethanolamine N-methyltransferase knockout mouse.
• FOXP3: not just for regulatory T cells anymore.
• Focusing Optics for High-Energy X-ray Diffraction.
• Formulation of magnetically perturbed time-dependent density functional theory.
• Genetic variation at the CYP19A1 locus predicts circulating estrogen levels but not breast cancer risk in postmenopausal women.
• IL-2Rbeta links IL-2R signaling with Foxp3 expression.
• Impaired T cell receptor signaling in Foxp3+ CD4 T cells.
• Inducible expression of the proallergic cytokine thymic stromal lymphopoietin in airway epithelial cells is controlled by NFkappaB.
• Induction of IL-4 expression in CD4(+) T cells by thymic stromal lymphopoietin.
• L-glutamine-enriched parenteral nutrition in catabolic patients.
• Local glutathione redox status does not regulate ileal mucosal growth after massive small bowel resection in rats.
• Magnetic circular dichroism of porphyrins containing M = Ca, Ni, and Zn. A computational study based on time-dependent density functional theory.
• NAD Kinase Levels Control the NADPH Concentration in Human Cells.
• Nanosecond field alignment of head group and water dipoles in electroporating phospholipid bilayers.
• New electromagnetic mode in graphene.
• Non-invasive measurement of small peptides in the common marmoset (Callithrix jacchus): a radiolabeled clearance study and endogenous excretion under varying social conditions.
• Passive rotary dynamic sitting at the workplace by office-workers with lumbar pain: a randomized multicenter study.
• Pharmacology of benzydamine.
• Quantitative measurement of endogenous estrogens and estrogen metabolites in human serum by liquid chromatography-tandem mass spectrometry.
• Restraint-induced corticosterone secretion and hypothalamic CRH mRNA expression are augmented during acute withdrawal from chronic cocaine administration.
• Stimulation of colonic mucosal growth associated with oxidized redox status in rats.
• X-ray magnetic reflectometry using circularly polarized radiation.
• [Chronic renal failure and transplantation]
• [In Process Citation]