Course Materials: Quantitative Genetics [Fall 2008]

Topics for 2008 Fall Session

Website: OpenMx
Text: Methodology for Genetic Studies of Twins and Families by Neale & Cardon, 1992 revision PDF of Neale & Maes book.
Classic Mx Manual: Mx: Statistical Modeling by Neale, Boker, Xie & Maes, 2006 PDF of Mx manual.

Date Lecture Topic Lecturer Notes and Examples
Aug 28 Causes of variation/ Biometrical Genetics Hermine Maes Introduction PPT
Introduction PDF
Sep 04 Path analysis
Matrix algebra
Introduction to Mx
Biometrical Genetics
Hermine Maes Path Analysis PPT, PDF
Matrix Algebra PPT, PDF
Mx input
Mx output
Intro to Mx PPT, PDF
Biometrical Genetics PPT, PDF
Sep 12 Summarizing data/ Univariate ACE model
Fitting basic models
Hermine Maes Saturated example files
Univariate example files
  Introduction to SEM
Maximum likelihood / Goodness-of-fit Statistics
Michael Neale Individual Fit
Twin Analysis (Enc of Biostat)
Twin Studies: Software (Enc HG)
Software BG (Enc Beh Sc)
Likelihood example
One locus example
Two locus example
Sep 18 Univariate Genetic Analysis
Fitting basic models
Hermine Maes Univariate Models PPT, PDF
Univariate Models PPT
Univariate example files
Fill in the blanks exercise
Sep 25 Univariate Genetic Analysis
Fitting basic models
Hermine Maes Threshold Models PPT, PDF
Categorical Data PPT, PDF
Categorical example files
Threshold Calculation
Oct 02 Gene x age/sex/environment interaction
Testing for heterogeneity across sex/age
Hermine Maes Heterogeneity PPT, PDF
Heterogeneity example files
Oct 09 Genetic models for correlated data
Phenotypic FA / Fitting bivariate models
Nathan Gillespie Bivariate PPT, PDF
Bivariate example files
Oct 16 Independent and common pathway models
Fitting multivariate models
Hermine Maes Multivariate PPT, PDF
Multivariate example files
Oct 23 Developmental continuity and change
Fitting models to longitudinal data
Nathan Gillespie Longitudinal PPT, PDF
BGA2000 PPT
BGA2001 PPT
Developmental example files
Oct 30 Issues in study design & power
Power Calculations & Simulation
Michael Neale Power PPT, PDF
Power example files
Power: Neale ea 94
Visscher 04
Visscher 08
EEA: Derks ea 06
Nov 06 Extended Pedigrees
Fitting models to extended kinships
Hermine Maes Extended Pedigrees PPT, PDF
Extended Pedigrees example files
Nov 13 Methods for identifying QTL’s
QTL analysis
Daniel Dick Linkage and Association Intro PPT, PDF
Nov 20 Linkage and Association Analysis
Fitting Linkage and Association Models
Sarah Medland Linkage & Association PPT, PDF
Linkage and Association example files
Dec 04 Item response Theory
Fitting IRT Models
Nathan Gillespie Item Response Theory example files