Question

GWAS dataset: SNPs with association p-value

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9.3 years ago

yliueagle ▴ 290

I want to download some GWAS datasets (1 will be ok), that it should contain mainly the following information: 1) the SNPs; 2) the SNP p-vlaue (by single SNP association analysis, meta-analysis, etc). My objective is to try this dataset for gene set enrichment analysis (GSEA). Any resources?

GWAS dataset • 4.7k views

ADD COMMENT • link updated 2.1 years ago by Ram 43k • written 9.3 years ago by yliueagle ▴ 290

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In 2016-2017, GRASP had added the public posting of many GWAS summary statistics and continues to add more. See: https://grasp.nhlbi.nih.gov/FullResults.aspx

ADD REPLY • link updated 2.1 years ago by Ram 43k • written 7.1 years ago by johnsonad2 • 0

Ram · Answer 1 · 2015-01-19

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9.3 years ago

Emily 23k

Have you looked at the GWAS catalogue?

ADD COMMENT • link updated 2.1 years ago by Ram 43k • written 9.3 years ago by Emily 23k

Ram · Answer 2 · 2015-01-20

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9.3 years ago

willgilks ▴ 360

As of January 2015, GWAS datasets for which the association p-values and effect sizes are available:

DIAGRAM consortium (diabetes)

GIANT consortium (human body size)

PGC (psychiatric)

Not sure if there any more.

ADD COMMENT • link updated 2.1 years ago by Ram 43k • written 9.3 years ago by willgilks ▴ 360