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  • 1
    Online Resource
    Online Resource
    Newark :John Wiley & Sons, Incorporated,
    Keywords: Population genetics. ; Evolution (Biology) -- Computer simulation. ; Electronic books.
    Type of Medium: Online Resource
    Pages: 1 online resource (258 pages)
    Edition: 1st ed.
    ISBN: 9781118180327
    DDC: 576.580113
    Language: English
    Note: FORWARD-TIME POPULATION GENETICS SIMULATIONS: Methods, Implementation, and Applications -- CONTENTS -- PREFACE -- ACKNOWLEDGMENTS -- LIST OF EXAMPLES -- 1 BASIC CONCEPTS AND MODELS -- 1.1 Biological and Genetic Concepts -- 1.1.1 Genome and Chromosomes -- 1.1.2 Genes, Markers, Loci, and Alleles -- 1.1.3 Recombination and Linkage -- 1.1.4 Sex Chromosomes -- 1.1.5 Mutation and Mutation Models -- 1.2 Population and Evolutionary Genetics -- 1.2.1 Population Variation and Mutation -- 1.2.2 The Wright-Fisher Model and Random Mating -- 1.2.3 The Hardy-Weinberg Equilibrium -- 1.2.4 Genetic Drift and Effective Population Size -- 1.2.5 Natural Selection -- 1.2.6 Linkage Equilibrium -- 1.2.7 Population Structure and Migration -- 1.2.8 Demographic History of Human Populations -- 1.2.9 Coalescent and Backward-Time Simulations -- 1.2.10 Forward-Time Simulations -- 1.3 Statistical Genetics and Genetic Epidemiology -- 1.3.1 Penetrance Models -- 1.3.2 Simple and Complex Genetic Diseases -- 1.3.3 Phenotypic, Allelic, and Locus Heterogeneity -- 1.3.4 Study Designs of Gene Mapping -- References -- 2 SIMULATION OF POPULATION GENETICS MODELS -- 2.1 Random Genetic Drift -- 2.1.1 Dynamics of Allele Frequency and Heterozygosity -- 2.1.2 Persistence Time -- 2.2 Demographic Models -- 2.2.1 The Bottleneck Effect -- 2.3 Mutation -- 2.3.1 A Diallelic Mutation Model -- 2.3.2 Multiallelic Mutation Models -- 2.4 Migration -- 2.4.1 An Island Model of Migration -- 2.5 Recombination and Linkage Disequilibrium -- 2.6 Natural Selection -- 2.6.1 Single-Locus Diallelic Selection Models -- 2.6.2 Multilocus Selection Models -- 2.7 Genealogy of Forward-Time Simulations -- 2.7.1 Genealogy of Haploid Simulations -- 2.7.2 Genealogy of Diploid Simulations -- References -- 3 ASCERTAINMENT BIAS IN POPULATION GENETICS -- 3.1 Introduction -- 3.2 Methods -- 3.2.1 Evolution of a DNA Repeat Locus. , 3.2.2 Conditional Distributions and Ascertainment Bias of Allele Sizes -- 3.2.3 Simulation Method -- 3.3 Results -- 3.3.1 Summary of Modeling Results -- 3.3.2 Comparisons of Empirical Statistics Derived from Human and Chimpanzee Microsatellite Data -- 3.4 Discussion and Conclusions -- References -- 4 OBSERVING PROPERTIES OF EVOLVING POPULATIONS -- 4.1 Introduction -- 4.1.1 Allelic Spectra of Complex Human Diseases -- 4.1.2 An Evolutionary Model of Effective Number of Disease Alleles -- 4.1.3 Simulation of the Evolution of ne -- 4.2 Simulation of the Evolution of Allele Spectra -- 4.2.1 Demographic Models -- 4.2.2 Output Statistics -- 4.2.3 Mutation Models -- 4.2.4 Multilocus Selection Models -- 4.2.5 Evolve! -- 4.2.6 Validation of Theoretical Results -- 4.3 Extensions to the Basic Model -- 4.3.1 Impact of Demographic Models -- 4.3.2 Impact of the Mutation Model -- 4.3.3 Impact of Subpopulation Structure -- 4.3.4 Impact of Migration -- 4.3.5 Distribution of Equilibrium Disease Allele Frequency -- 4.3.6 Varying Selection and Mutation Coefficients -- 4.3.7 Evolution of Disease Predisposing Loci Under Weak Selection -- 4.3.8 Discussion -- References -- 5 SIMULATING POPULATIONS WITH COMPLEX HUMAN DISEASES -- 5.1 Introduction -- 5.2 Controlling Disease Allele Frequencies at the Present Generation -- 5.2.1 Introduction of Disease Alleles -- 5.2.2 Trajectory of Disease Allele Frequency -- 5.2.3 Forward- and Backward-Time Simulations -- 5.2.4 Random Mating with Controlled Disease Allele Frequency -- 5.3 Forward-Time Simulation of Realistic Samples -- 5.3.1 Method -- 5.3.2 Drawing Population and Family-Based Samples -- 5.3.3 Example 1: Typical Simulations With or Without Scaling -- 5.3.4 Example 2:AGenetic Disease with Two DPL -- 5.3.5 Example 3: Simulations of Slow and Rapid Selective Sweep -- 5.4 Discussion -- References. , 6 NONRANDOM MATING AND ITS APPLICATIONS -- 6.1 Assortative Mating -- 6.1.1 Genetic Architecture of Traits -- 6.1.2 Mating Model -- 6.1.3 Simulation of Assortative Mating -- 6.2 More Complex Nonrandom Mating Schemes -- 6.2.1 Customized Parent Choosing Scheme -- 6.2.2 Example of a Nonrandom Mating in a Continuous Habitat -- 6.3 Heterogeneous Mating Schemes -- 6.3.1 Simulation of Population Admixture -- 6.4 Simulation of Age-Structured Populations -- 6.4.1 Simulation of Age-Structured Populations -- 6.4.2 A Hypothetical Disease Model -- 6.4.3 Evolution of an Age-Structured Population with Lung Cancer -- References -- APPENDIX: FORWARD-TIME SIMULATIONS USING simuPOP -- A.1 Introduction -- A.1.1 What is simuPOP? -- A.1.2 An Overview of simuPOP Concepts -- A.2 Population -- A.2.1 Creating a Population -- A.2.2 Genotype Structure of a Population -- A.2.3 Subpopulations and Virtual Subpopulations -- A.2.4 Accessing Individuals in a Population -- A.2.5 Population Variables -- A.2.6 Altering the Structure, Genotype, or Information Fields of a Population -- A.2.7 Multigeneration Populations and Parental Information -- A.2.8 Saving and Loading a Population -- A.3 Operators -- A.3.1 Applicable Generations -- A.3.2 Operator Output -- A.3.3 During-Mating Operators -- A.3.4 Function Form of Operators -- A.3.5 Operator Stat -- A.3.6 Hybrid and Python Operators -- A.4 Evolving One or More Populations -- A.4.1 Mating Scheme -- A.4.2 Conditionally Terminating an Evolutionary Process -- A.4.3 Evolving Several Populations Simultaneously -- A.5 A Complete simuPOP Script -- Reference -- INDEX.
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  • 2
    ISSN: 1749-6632
    Source: Blackwell Publishing Journal Backfiles 1879-2005
    Topics: Natural Sciences in General
    Type of Medium: Electronic Resource
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  • 3
    ISSN: 1546-1718
    Source: Nature Archives 1869 - 2009
    Topics: Biology , Medicine
    Notes: [Auszug] Crohn disease is a chronic, inflammatory disease of the gastrointestinal tract. A locus of ∼250 kb at 5q31 (IBD5) was previously associated with susceptibility to Crohn disease, as indicated by increased prevalence of a risk haplotype of 11 single-nucleotide polymorphisms among individuals ...
    Type of Medium: Electronic Resource
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  • 4
    ISSN: 1546-1718
    Source: Nature Archives 1869 - 2009
    Topics: Biology , Medicine
    Notes: [Auszug] We investigated the molecular genetics of epidermolytic hyperkeratosis (EHK), a dominant disorder characterized by epidermal blistering, hyperkeratosis, vacuolar degeneration and clumping of keratin filaments. Based on this pathology, we have excluded by linkage analysis several candidate genes for ...
    Type of Medium: Electronic Resource
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  • 5
    ISSN: 1432-1203
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract Li-Fraumeni syndrome (LFS) is characterized by a high risk of sarcomas, early onset of breast cancer, and a diversity of other cancers occurring as multiple primary tumors in multiple family members. In many families with LFS, germline mutations within the tumor-suppressor gene p53 have been identified. However, mutations in p53 have not been detected in approximately 30% of LFS families. To address the possibility either that p53 mutations were being missed or that another predisposing gene is altered in LFS, we used a variety of methods to accurately determine the p53 status in a large LFS kindred. A transcriptional activation assay on exons 4–10 of p53 excluded a mutation within the DNA-binding domain of p53. Single-stranded conformational-polymorphism analysis, using intronic primers and sequencing of all the coding exons and intron/exon junctions, also yielded no mutations. Finally, linkage analysis excluded potential mutations in the noncoding regions of p53. Our findings exclude the presence of a p53 germline mutation in a classic LFS family.
    Type of Medium: Electronic Resource
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  • 6
    ISSN: 1573-3521
    Keywords: Type A behavior ; children ; coronary-prone behavior ; age ; race ; gender
    Source: Springer Online Journal Archives 1860-2000
    Topics: Medicine , Psychology
    Notes: Abstract To evaluate the development of Type A-like behavior in children, responses to the Hunter-Wolf Instrument were studied in 2128 children in Bogalusa, Louisiana, a biracial community. Test-retest reliability measures were generated by retesting a random subsample of 387 children 2 weeks after the initial testing. Norms were tabulated for each of the age, race, and sex groups. Increases in total and subscale scores with age were noted except for the Hostility subscale, which decreased dramatically in the older groups. White males had higher average scores during the entire period than other groups and scored significantly higher than other groups on subscales, created from principal-components analysis, measuring Eagerness and Hostility. Low test-retest correlations were observed in children younger than 13 years of age. Of the four race-sex groups studied, white males appear to accrue the highest risk for coronary heart disease from type A-like behavior.
    Type of Medium: Electronic Resource
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  • 7
    ISSN: 1573-3521
    Keywords: Type A ; smoking ; alcohol ; contraception ; adolescents
    Source: Springer Online Journal Archives 1860-2000
    Topics: Medicine , Psychology
    Notes: Abstract Type A behavior pattern (TABP) is an independent risk factor for cardiovascular (CV) disease and is characterized by hostile, aggressive, competitive behavior. TABP characteristics and CV risk factors have been found in children and adolescents. TABP has been correlated with adult alcohol consumption, but studies associating Type A and smoking are mixed. The purpose of this study is to investigate the smoking, alcohol use, and oral contraceptive use of Type A children and adolescents. The Hunter-Wolf Type A scale and a health habits questionnaire were evaluated for 2092 children, ages 8–17 years, within the context of a comprehensive biracial epidemiological CV screening in Bogalusa, Louisiana. Global Type A and factor components were evaluated: hostility, eagergy, desire for control, drive, and competitiveness. Correlation coefficients reflected the strongest associations between hostility and smoking and between hostility and drinking for white males. The age at menarche appeared to be correlated with the drive component.
    Type of Medium: Electronic Resource
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