Biostatistics 666: Linkage Disequilibrium - Revision history

Goncalo: /* Slides */

2017-09-13T11:53:48Z

Slides

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	[[Media:666.2017.03 - Linkage Disequilibrium.pdf\|Slides in PDF Format]]		[[Media:666.2017.03 - Linkage Disequilibrium.pdf\|Slides in PDF Format]]

	~~[[Media:666.03.pdf\|Previous Version]]~~

	== Background Reading ==		== Background Reading ==

Goncalo: /* Slides */

2017-09-13T11:53:36Z

Slides

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	== Slides ==		== Slides ==

	[[Media:666.03.pdf\|Slides in PDF Format]]		[[Media:666.2017.03 - Linkage Disequilibrium.pdf\|Slides in PDF Format]]

			[[Media:666.03.pdf\|Previous Version]]

	== Background Reading ==		== Background Reading ==

Goncalo: /* Background Reading */

2010-09-14T06:03:23Z

Background Reading

← Older revision		Revision as of 02:03, 14 September 2010
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	== Background Reading ==		== Background Reading ==

	Dawson E, Abecasis GR, Bumpstead S, Chen Y, Hunt S, Beare DM, Pabial J, Dibling T, Tinsley E, Kirby S, Carter D, Papaspyridonos M, Livingstone S, Ganske R, Lohmussaar E, Zernant J, Tonisson N, Remm M, Magi R, Puurand T, Vilo J, Kurg A, Rice K, Deloukas P, Mott R, Metspalu A, Bentley DR, Cardon LR and Dunham I (2002). A first-generation linkage disequilibrium map of human chromosome 22. Nature 418:544-548 [http://www.nature.com/nature/journal/v418/n6897/full/nature00864.html Link ]		Dawson E, Abecasis GR, Bumpstead S, Chen Y, Hunt S, Beare DM, Pabial J, Dibling T, Tinsley E, Kirby S, Carter D, Papaspyridonos M, Livingstone S, Ganske R, Lohmussaar E, Zernant J, Tonisson N, Remm M, Magi R, Puurand T, Vilo J, Kurg A, Rice K, Deloukas P, Mott R, Metspalu A, Bentley DR, Cardon LR and Dunham I (2002). A first-generation linkage disequilibrium map of human chromosome 22. Nature 418:544-548 [http://www.nature.com/nature/journal/v418/n6897/full/nature00864.html Link]

	The International HapMap Consortium. (2005). A haplotype map of the human genome. Nature 437:1299-320		The International HapMap Consortium. (2005). A haplotype map of the human genome. Nature 437:1299-320 [http://www.nature.com/nature/journal/v437/n7063/full/nature04226.html Link]

	Carlson CS, Eberle MA, Rieder MJ, Yi Q, Kruglyak L, Nickerson DA (2004). Selecting a maximally informative set of single-nucleotide polymorphisms for association analyses using linkage disequilibrium. Am J Hum Genet 74:106-120		Carlson CS, Eberle MA, Rieder MJ, Yi Q, Kruglyak L, Nickerson DA (2004). Selecting a maximally informative set of single-nucleotide polymorphisms for association analyses using linkage disequilibrium. Am J Hum Genet 74:106-120

Goncalo at 06:02, 14 September 2010

2010-09-14T06:02:17Z

← Older revision		Revision as of 02:02, 14 September 2010
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	== Objective ==		== Objective ==

	Introduce the concept of linkage disequilibrium. Provide students with an understanding of D' and r<sup>2</sup>, the two most common measures of linkage disequilibrium, and the forces that shape them. Provide several illustrations of the extent of linkage disequilibrium in the genome, including the idea that the extent of linkage disequilibrium will vary between populations and genomic regions.~~ ~~		Introduce the concept of linkage disequilibrium. Provide students with an understanding of D' and r<sup>2</sup>, the two most common measures of linkage disequilibrium, and the forces that shape them. Provide several illustrations of the extent of linkage disequilibrium in the genome, including the idea that the extent of linkage disequilibrium will vary between populations and genomic regions.

	Introduce the concept of SNP-tagging and its consequences for association studies, both positive (because it implies that powerful studies don't have to examine all variants) and negative (because it makes identification of causal variants more challenging).~~ ~~		Introduce the concept of SNP-tagging and its consequences for association studies, both positive (because it implies that powerful studies don't have to examine all variants) and negative (because it makes identification of causal variants more challenging).

	== Slides ==		== Slides ==

Goncalo: /* Objective */

2010-09-14T06:01:45Z

Objective

← Older revision		Revision as of 02:01, 14 September 2010
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	== Objective ==		== Objective ==

	Introduce the concept of linkage disequilibrium. Provide students with an understanding of D' and r^2, the most common measures of linkage disequilibrium, and the forces that shape them. Provide several illustrations of the extent of linkage disequilibrium in the genome. Introduce the concept of SNP-tagging.		Introduce the concept of linkage disequilibrium. Provide students with an understanding of D' and r<sup>2</sup>, the two most common measures of linkage disequilibrium, and the forces that shape them. Provide several illustrations of the extent of linkage disequilibrium in the genome, including the idea that the extent of linkage disequilibrium will vary between populations and genomic regions.

			Introduce the concept of SNP-tagging and its consequences for association studies, both positive (because it implies that powerful studies don't have to examine all variants) and negative (because it makes identification of causal variants more challenging).

	== Slides ==		== Slides ==

Zhanxw at 00:24, 22 January 2010

2010-01-22T00:24:28Z

← Older revision		Revision as of 20:24, 21 January 2010
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	== Objective ==		== Objective ==

	Introduce the concept of linkage disequilibrium. Provide students with an understanding of D' and r^2, the most common measures of linkage disequilibrium, and the forces that shape them. Provide several illustrations of the extent of linkage disequilibrium in the genome. Introduce the concept of SNP-tagging.		Introduce the concept of linkage disequilibrium. Provide students with an understanding of D' and r^2, the most common measures of linkage disequilibrium, and the forces that shape them. Provide several illustrations of the extent of linkage disequilibrium in the genome. Introduce the concept of SNP-tagging.

	== Slides ==		== Slides ==

	[[Media:666.03.pdf\|Slides in PDF Format]]		[[Media:666.03.pdf\|Slides in PDF Format]]

	== Background Reading ==		== Background Reading ==

	Dawson E, Abecasis GR, Bumpstead S, Chen Y, Hunt S, Beare DM, Pabial J, Dibling T, Tinsley E, Kirby S, Carter D, Papaspyridonos M, Livingstone S, Ganske R, Lohmussaar E, Zernant J, Tonisson N, Remm M, Magi R, Puurand T, Vilo J, Kurg A, Rice K, Deloukas P, Mott R, Metspalu A, Bentley DR, Cardon LR and Dunham I (2002). A first-generation linkage disequilibrium map of human chromosome 22. Nature 418:544-548 [[ http://www.nature.com/nature/journal/v418/n6897/full/nature00864.html \| Link ]]		Dawson E, Abecasis GR, Bumpstead S, Chen Y, Hunt S, Beare DM, Pabial J, Dibling T, Tinsley E, Kirby S, Carter D, Papaspyridonos M, Livingstone S, Ganske R, Lohmussaar E, Zernant J, Tonisson N, Remm M, Magi R, Puurand T, Vilo J, Kurg A, Rice K, Deloukas P, Mott R, Metspalu A, Bentley DR, Cardon LR and Dunham I (2002). A first-generation linkage disequilibrium map of human chromosome 22. Nature 418:544-548 [http://www.nature.com/nature/journal/v418/n6897/full/nature00864.html Link ]

	The International HapMap Consortium. (2005). A haplotype map of the human genome. Nature 437:1299-320		The International HapMap Consortium. (2005). A haplotype map of the human genome. Nature 437:1299-320

	Carlson CS, Eberle MA, Rieder MJ, Yi Q, Kruglyak L, Nickerson DA (2004). Selecting a maximally informative set of single-nucleotide polymorphisms for association analyses using linkage disequilibrium. Am J Hum Genet 74:106-120		Carlson CS, Eberle MA, Rieder MJ, Yi Q, Kruglyak L, Nickerson DA (2004). Selecting a maximally informative set of single-nucleotide polymorphisms for association analyses using linkage disequilibrium. Am J Hum Genet 74:106-120

Zhanxw at 00:23, 22 January 2010

2010-01-22T00:23:42Z

← Older revision		Revision as of 20:23, 21 January 2010
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	== Background Reading ==		== Background Reading ==

	Dawson E, Abecasis GR, Bumpstead S, Chen Y, Hunt S, Beare DM, Pabial J, Dibling T, Tinsley E, Kirby S, Carter D, Papaspyridonos M, Livingstone S, Ganske R, Lohmussaar E, Zernant J, Tonisson N, Remm M, Magi R, Puurand T, Vilo J, Kurg A, Rice K, Deloukas P, Mott R, Metspalu A, Bentley DR, Cardon LR and Dunham I (2002). A first-generation linkage disequilibrium map of human chromosome 22. Nature 418:544-548 [[http://www.nature.com/nature/journal/v418/n6897/full/nature00864.html\|Link]]		Dawson E, Abecasis GR, Bumpstead S, Chen Y, Hunt S, Beare DM, Pabial J, Dibling T, Tinsley E, Kirby S, Carter D, Papaspyridonos M, Livingstone S, Ganske R, Lohmussaar E, Zernant J, Tonisson N, Remm M, Magi R, Puurand T, Vilo J, Kurg A, Rice K, Deloukas P, Mott R, Metspalu A, Bentley DR, Cardon LR and Dunham I (2002). A first-generation linkage disequilibrium map of human chromosome 22. Nature 418:544-548 [[ http://www.nature.com/nature/journal/v418/n6897/full/nature00864.html \| Link ]]

	The International HapMap Consortium. (2005). A haplotype map of the human genome. Nature 437:1299-320		The International HapMap Consortium. (2005). A haplotype map of the human genome. Nature 437:1299-320

	Carlson CS, Eberle MA, Rieder MJ, Yi Q, Kruglyak L, Nickerson DA (2004). Selecting a maximally informative set of single-nucleotide polymorphisms for association analyses using linkage disequilibrium. Am J Hum Genet 74:106-120		Carlson CS, Eberle MA, Rieder MJ, Yi Q, Kruglyak L, Nickerson DA (2004). Selecting a maximally informative set of single-nucleotide polymorphisms for association analyses using linkage disequilibrium. Am J Hum Genet 74:106-120

Zhanxw at 00:23, 22 January 2010

2010-01-22T00:23:03Z

← Older revision		Revision as of 20:23, 21 January 2010
Line 9:		Line 9:
	== Background Reading ==		== Background Reading ==

	Dawson E, Abecasis GR, Bumpstead S, Chen Y, Hunt S, Beare DM, Pabial J, Dibling T, Tinsley E, Kirby S, Carter D, Papaspyridonos M, Livingstone S, Ganske R, Lohmussaar E, Zernant J, Tonisson N, Remm M, Magi R, Puurand T, Vilo J, Kurg A, Rice K, Deloukas P, Mott R, Metspalu A, Bentley DR, Cardon LR and Dunham I (2002). A first-generation linkage disequilibrium map of human chromosome 22. Nature 418:544-548		Dawson E, Abecasis GR, Bumpstead S, Chen Y, Hunt S, Beare DM, Pabial J, Dibling T, Tinsley E, Kirby S, Carter D, Papaspyridonos M, Livingstone S, Ganske R, Lohmussaar E, Zernant J, Tonisson N, Remm M, Magi R, Puurand T, Vilo J, Kurg A, Rice K, Deloukas P, Mott R, Metspalu A, Bentley DR, Cardon LR and Dunham I (2002). A first-generation linkage disequilibrium map of human chromosome 22. Nature 418:544-548 [[http://www.nature.com/nature/journal/v418/n6897/full/nature00864.html\|Link]]

	The International HapMap Consortium. (2005). A haplotype map of the human genome. Nature 437:1299-320		The International HapMap Consortium. (2005). A haplotype map of the human genome. Nature 437:1299-320

	Carlson CS, Eberle MA, Rieder MJ, Yi Q, Kruglyak L, Nickerson DA (2004). Selecting a maximally informative set of single-nucleotide polymorphisms for association analyses using linkage disequilibrium. Am J Hum Genet 74:106-120		Carlson CS, Eberle MA, Rieder MJ, Yi Q, Kruglyak L, Nickerson DA (2004). Selecting a maximally informative set of single-nucleotide polymorphisms for association analyses using linkage disequilibrium. Am J Hum Genet 74:106-120

Goncalo: /* Objective */

2010-01-14T11:56:42Z

Objective

← Older revision		Revision as of 07:56, 14 January 2010
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	== Objective ==		== Objective ==

			Introduce the concept of linkage disequilibrium. Provide students with an understanding of D' and r^2, the most common measures of linkage disequilibrium, and the forces that shape them. Provide several illustrations of the extent of linkage disequilibrium in the genome. Introduce the concept of SNP-tagging.

	== Slides ==		== Slides ==

Goncalo: Created page with '== Objective == == Slides == Slides in PDF Format == Background Reading == Dawson E, Abecasis GR, Bumpstead S, Chen Y, Hunt S, Beare DM, Pabial J, Diblin…'

2010-01-14T11:54:38Z

Created page with '== Objective == == Slides == Slides in PDF Format == Background Reading == Dawson E, Abecasis GR, Bumpstead S, Chen Y, Hunt S, Beare DM, Pabial J, Diblin…'

New page

== Objective ==

== Slides ==

[[Media:666.03.pdf|Slides in PDF Format]]

== Background Reading ==

Dawson E, Abecasis GR, Bumpstead S, Chen Y, Hunt S, Beare DM, Pabial J, Dibling T, Tinsley E, Kirby S, Carter D, Papaspyridonos M, Livingstone S, Ganske R, Lohmussaar E, Zernant J, Tonisson N, Remm M, Magi R, Puurand T, Vilo J, Kurg A, Rice K, Deloukas P, Mott R, Metspalu A, Bentley DR, Cardon LR and Dunham I (2002). A first-generation linkage disequilibrium map of human chromosome 22. Nature 418:544-548

The International HapMap Consortium. (2005). A haplotype map of the human genome. Nature 437:1299-320

Carlson CS, Eberle MA, Rieder MJ, Yi Q, Kruglyak L, Nickerson DA (2004). Selecting a maximally informative set of single-nucleotide polymorphisms for association analyses using linkage disequilibrium. Am J Hum Genet 74:106-120