Statistical Genetics

Theory, Practice and Application

Connect genetic inheritance to probability models and statistical inference. The course develops population, family, linkage and association methods before moving to GWAS, imputation, sequencing and simulation, with Nigerian examples and computational work in R and Python.

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20 chapters · 353 body pages · R and Python · Worked examples and exercises

Before you start

Probability, statistical inference and basic R or Python. Chapter 1 introduces the biological vocabulary needed for the later methods.

Read the preface and contents.

Your study route

Inheritance and population genetics

  1. 01Basic Biological Concepts in Genetics
  2. 02Mendel’s Laws of Inheritance
  3. 03Hardy–Weinberg Equilibrium
  4. 04Estimation of Allele Frequency: Approach to Equilibrium for an X-Linked Gene
  5. 05Non-Random Mating: Phenotypic Assortative Mating

Families, traits and likelihood

  1. 06Pedigree Analysis: Structure, Notation, and Relatedness
  2. 07Segregation Analysis and Genetic Model Fitting
  3. 08Estimation of the Recombination Fraction
  4. 09Inheritance of Quantitative Traits
  5. 10Likelihood Methods in Statistical Genetics

Association and population structure

  1. 11Population-Based Association Tests
  2. 12Candidate Gene Association Studies
  3. 13Family-Based Association Tests: The TDT and FBAT
  4. 14Population Substructure, Stratification, and Admixture
  5. 15Linkage Disequilibrium and Haplotype Inference

Modern genomic methods

  1. 16Coalescent Models
  2. 17Parametric and Non-Parametric Linkage Analysis
  3. 18Genome-Wide Association Studies (GWAS)
  4. 19Genotype Imputation
  5. 20Genome Sequencing, Rare-Variant Methods, and Simulation-Based Approaches in Statistical Genetics

Solutions and reference materials

How to use the course

Follow the chapters in sequence, or use the sidebar to revisit a method. Each reading has page controls, text search and a downloadable PDF. Attempt the exercises independently before opening the answer key. Keep a record of the assumptions, computations and interpretation for each worked example.

NoteAbout this teaching edition

The chapter readers contain the complete supplied textbook pages. The website adds navigation and study guidance; the original mathematical notation, code, diagrams, exercises and solutions are preserved. The full download combines the supplied preliminary material and body into one bookmarked textbook.

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