Biostatistics 666: Association Tests in Structured Populations - Revision history

Goncalo: /* Overview */

2010-10-26T08:30:35Z

Overview

← Older revision		Revision as of 04:30, 26 October 2010
Line 2:		Line 2:
	== Overview ==		== Overview ==

	This lecture introduces the problem of population stratification in the context of genetic association studies. It also discusses ~~three~~ possible strategies for handling population structure, specifically:		This lecture introduces the problem of population stratification in the context of genetic association studies. It also discusses introduces several possible strategies for detecting and handling population structure, specifically:

	* Using family based association tests, such as the TDT.		* Q-Q plots as a diagnostic tool in genetic association studies.
	* ~~Controling~~ the overall inflation of test statistics, ~~using the genomic control method~~.		* Using family based association tests, such as the TDT, to avoid spurious association even when a single marker is tested.
	* Using genotype based matching approaches.		* Using the genomic control method to controling the overall inflation of test statistics, when many markers are tested.
			* Using genotype based matching approaches to model population structure more explicitly.

	== Lecture Notes ==		== Lecture Notes ==

Goncalo: /* Recommended Reading */

2010-10-26T08:28:37Z

Goncalo: Created page with ' == Overview == This lecture introduces the problem of population stratification in the context of genetic association studies. It also discusses three possible strategies for h…'

2010-02-22T07:00:55Z

Created page with ' == Overview == This lecture introduces the problem of population stratification in the context of genetic association studies. It also discusses three possible strategies for h…'

New page

== Overview ==

This lecture introduces the problem of population stratification in the context of genetic association studies. It also discusses three possible strategies for handling population structure, specifically:

* Using family based association tests, such as the TDT.
* Controling the overall inflation of test statistics, using the genomic control method.
* Using genotype based matching approaches.

== Lecture Notes ==

[[Media:666.13.pdf|Slides in PDF Format]]

== Recommended Reading ==

*Genomic Control for Association Studies
**Devlin and Roeder (1999) Biometrics 55:997-1004
**Pritchard and Rosenberg (1999) Am J Hum Genet 65:220-228

*Methods for Inferring Population Structure
**Pritchard, Stephens and Donnelly, 2000. Genetics 155: 945-959

*Transmission Disequilibrium Tests
**Spielman et al (1993) Am J Hum Genet 52:506-16 (trios)
**Curtis (1997) Ann Hum Genet 61:319-33 (sibling pairs)

← Older revision		Revision as of 04:28, 26 October 2010
Line 20:		Line 20:
	*Methods for Inferring Population Structure		*Methods for Inferring Population Structure
	**Pritchard, Stephens and Donnelly, 2000. Genetics 155: 945-959		**Pritchard, Stephens and Donnelly, 2000. Genetics 155: 945-959

			* Principal Components Analysis
			** Price et al (2006) Nature Genetics 38:904-909

	*Transmission Disequilibrium Tests		*Transmission Disequilibrium Tests
	**Spielman et al (1993) Am J Hum Genet 52:506-16 (trios)		**Spielman et al (1993) Am J Hum Genet 52:506-16 (trios)
	**Curtis (1997) Ann Hum Genet 61:319-33 (sibling pairs)		**Curtis (1997) Ann Hum Genet 61:319-33 (sibling pairs)