Statistical Genomics Course Notes (Stat 692)
Spring 2003
Brian S. Yandell (yandell@stat.wisc.edu)
www.stat.wisc.edu/~yandell/statgen/course/

These are notes built around a text in preparation titled ``Statistical Methods for Quantitative Trait Loci in Experimental Crosses'' by KW Broman, GA Churchill, BS Yandell, ZB Zeng. Numbered chapter/notes are mine; indented subheadings are links to useful ancillary material. Citations within my notes are to Quantitative Trait Loci References.
0 Overview
1 General Biology Relevant to QTL
Central Dogma of Molecular Biology, Access Excellence
Central Dogma, MIT Biology Hypertextbook
Meiosis Tutorial, Biology Project, U AZ
The Inner Life of a Cell, Biovisions, Harvard U
A Biologist's Mother's Day Song
Nobel e-Museum:
Meiotic Cytology, DG Peterson, MS Genome Exploration Lab, MS St U
Introduction to Recombination and Linkage Analysis, MS McPeek, Statistics, UC Berkeley
Review of statistical methods for QTL mapping in experimental crosses, KW Broman (2001) Lab Animal 30(7): 44-52.
2 Key Statistical Ideas for QTL
3 Marker Regression Analysis
4 Interval Mapping for Single QTL
5 Sample Size, Power & Thresholds
Experimental Design and Sample Size Requirement for QTL Mapping, ZB Zeng (2003), NCSU Bioinformatics, PAG XI
6 Model Selection for Multiple QTL
Assessment of Model Selection, KW Broman, Johns Hopkins U, & TP Speed, UC Berkeley
Mapping and characterizing QTL in inbred line crosses, GA Churchill (2001), Jackson Laboratory
Sillanpaa MJ, Arjas E (2002) Model choice in gene mapping: what and why. Trends in Genetics 18: 301-307.
7 Multiple QTL Implementation
Mapping and characterizing QTL in inbred line crosses, GA Churchill (2001), Jackson Laboratory
8 QTL for Multiple Crosses
Experimental Design and Sample Size Requirement for QTL Mapping, ZB Zeng (2003), NCSU Bioinformatics, PAG XI
Hardy-Weinberg & Linkage Disequilibrium (Yandell 2001 notes based on Zeng 2000 book draft)
Transmission Disequilbrium Test, Statistical Genetics, UC Berkeley, TP Speed
Finding Disease Genes, Human Genetics 500, Yale U, R Lifton
9 Multiple Traits and Environments
Jiang & Zeng (1995) CIM approach (Yandell 2001 notes based on Zeng 2000 book draft)
Gene Mapping for High Throughput Expression Profiles: Lessons from Diabetes (Yandell talk in Genetics Colloquium, 2000) [1.3M]
10 Extensions of the Phenotype Model
QTL References
Return to Statistical Genomics Course Page.
www.stat.wisc.edu/~yandell/statgen/course/ by Brian Yandell (yandell@stat.wisc.edu)