Abstract
Uncertainty about linkage phases of multiple single nucleotide polymorphisms (SNPs) in heterozygous diploids challenges the identification of specific DNA sequence variants that encode a complex trait. A statistical technique implemented with the EM algorithm has been developed to infer the effects of SNP haplotypes from genotypic data by assuming that one haplotype (called the risk haplotype) performs differently from the rest (called the non-risk haplotype). This assumption simplifies the definition and estimation of genotypic values of diplotypes for a complex trait, but will reduce the power to detect the risk haplotype when non-risk haplotypes contain substantial diversity. In this article, we incorporate general quantitative genetic theory to specify the differentiation of different haplotypes in terms of their genetic control of a complex trait. A model selection procedure is deployed to test the best number and combination of risk haplotypes, thus providing a precise and powerful test of genetic determination in association studies. Our method is derived on the maximum likelihood theory and has been shown through simulation studies to be powerful for the characterization of the genetic architecture of complex quantitative traits.
Keywords: Complex trait, diplotype, haplotype, quantitative genetics, quantitative trait nucleotides
Current Genomics
Title: A General Quantitative Genetic Model for Haplotyping a Complex Trait in Humans
Volume: 8 Issue: 5
Author(s): Song Wu, Jie Yang, Chenguang Wang and Rongling Wu
Affiliation:
Keywords: Complex trait, diplotype, haplotype, quantitative genetics, quantitative trait nucleotides
Abstract: Uncertainty about linkage phases of multiple single nucleotide polymorphisms (SNPs) in heterozygous diploids challenges the identification of specific DNA sequence variants that encode a complex trait. A statistical technique implemented with the EM algorithm has been developed to infer the effects of SNP haplotypes from genotypic data by assuming that one haplotype (called the risk haplotype) performs differently from the rest (called the non-risk haplotype). This assumption simplifies the definition and estimation of genotypic values of diplotypes for a complex trait, but will reduce the power to detect the risk haplotype when non-risk haplotypes contain substantial diversity. In this article, we incorporate general quantitative genetic theory to specify the differentiation of different haplotypes in terms of their genetic control of a complex trait. A model selection procedure is deployed to test the best number and combination of risk haplotypes, thus providing a precise and powerful test of genetic determination in association studies. Our method is derived on the maximum likelihood theory and has been shown through simulation studies to be powerful for the characterization of the genetic architecture of complex quantitative traits.
Export Options
About this article
Cite this article as:
Wu Song, Yang Jie, Wang Chenguang and Wu Rongling, A General Quantitative Genetic Model for Haplotyping a Complex Trait in Humans, Current Genomics 2007; 8 (5) . https://dx.doi.org/10.2174/138920207782446179
DOI https://dx.doi.org/10.2174/138920207782446179 |
Print ISSN 1389-2029 |
Publisher Name Bentham Science Publisher |
Online ISSN 1875-5488 |
Call for Papers in Thematic Issues
Current Genomics in Cardiovascular Research
Cardiovascular diseases are the main cause of death in the world, in recent years we have had important advances in the interaction between cardiovascular disease and genomics. In this Research Topic, we intend for researchers to present their results with a focus on basic, translational and clinical investigations associated with ...read more
Deep learning in Single Cell Analysis
The field of biology is undergoing a revolution in our ability to study individual cells at the molecular level, and to integrate data from multiple sources and modalities. This has been made possible by advances in technologies for single-cell sequencing, multi-omics profiling, spatial transcriptomics, and high-throughput imaging, as well as ...read more
New insights on Pediatric Tumors and Associated Cancer Predisposition Syndromes
Because of the broad spectrum of children cancer susceptibility, the diagnosis of cancer risk syndromes in children is rarely used in direct cancer treatment. The field of pediatric cancer genetics and genomics will only continue to expand as a result of increasing use of genetic testing tools. It's possible that ...read more
Related Journals
- Author Guidelines
- Graphical Abstracts
- Fabricating and Stating False Information
- Research Misconduct
- Post Publication Discussions and Corrections
- Publishing Ethics and Rectitude
- Increase Visibility of Your Article
- Archiving Policies
- Peer Review Workflow
- Order Your Article Before Print
- Promote Your Article
- Manuscript Transfer Facility
- Editorial Policies
- Allegations from Whistleblowers
- Announcements
Related Articles
-
The Many Faces of MTA3 Protein in Normal Development and Cancers
Current Protein & Peptide Science Plant-Derived Leading Compounds for Eradication of Helicobacter pylori
Current Medicinal Chemistry - Anti-Infective Agents Evaluation of the Anticancer Activities of the Plant Alkaloids Sanguinarine and Chelerythrine in Human Breast Adenocarcinoma Cells
Anti-Cancer Agents in Medicinal Chemistry Retracted: Potential Health Benefits of Broccoli- A Chemico-Biological Overview
Mini-Reviews in Medicinal Chemistry Subject Index to Volume 9
Current Pharmaceutical Design The Effect of Chemotherapy/Radiotherapy on Cancerous Pattern Recognition by NK Cells
Current Medicinal Chemistry TGF-Beta Type I Receptor (Alk5) Kinase Inhibitors in Oncology
Current Pharmaceutical Biotechnology A Summary of Electrospun Nanofibers as Drug Delivery System: Drugs Loaded and Biopolymers Used as Matrices
Current Drug Delivery Spectrum of Radiopharmaceuticals in Nuclear Oncology
Current Cancer Drug Targets Diabetes and Pancreas: Why So Difficult? Potential Mechanisms of Elevated Serum Pancreatic Enzymes
Current Medicinal Chemistry Hypoxia Inducible Factor-1 in Cancer Immune Suppression
Current Immunology Reviews (Discontinued) A New 4-phenyl-1,8-naphthyridine Derivative Affects Carcinoma Cell Proliferation by Impairing Cell Cycle Progression and Inducing Apoptosis
Anti-Cancer Agents in Medicinal Chemistry Synthesis, Characterization and Safety Profiling of Eudragit-Based pHResponsive Hydrogels: A Promising Platform for Colonic Delivery of Losartan Potassium
Current Drug Delivery Signal Transduction Pathways of Taxanes-Induced Apoptosis
Current Medicinal Chemistry - Anti-Cancer Agents Chemotherapy with Gemcitabine in Advanced Biliary Tract Carcinoma
Reviews on Recent Clinical Trials Novel Drug-Induced Pulmonary Complications in Cancer Patients You Can Save Life!
Current Respiratory Medicine Reviews Status of Anti-Lung Cancer Drug Patents Applications in China from 2003 to 2012
Recent Patents on Anti-Cancer Drug Discovery Cancer-associated Autoantibodies as Biomarkers for Early Detection and Prognosis is Cancer: An Update
Current Cancer Therapy Reviews In vitro Lipolysis: An Indispensable Tool for the Development of IVIVC of Lipid Based Drug Delivery Systems
Drug Delivery Letters Recent Progress of Small Molecular VEGFR Inhibitors as Anticancer Agents
Mini-Reviews in Medicinal Chemistry