lipid.cad: Effect of blood lipids (LDL cholesterol, HDL cholesterol,...

In qingyuanzhao/mr.raps: Two Sample Mendelian Randomization using Robust Adjusted Profile Score

Effect of blood lipids (LDL cholesterol, HDL cholesterol, Triglycerides) on Cardiovascular disease risk

Description

This dataset is created from four genome-wide association studies:

1. A 2010 GWAS of blood lipids (Teslovich et al.\, 2010), named "teslovich_2010" in the dataset.

2. The MetaboChip (MC) data in a 2013 GWAS of blood lipids (Willer et al.\, 2013), named "mc_2013" in the dataset.

3. The CARDIoGRAMplusC4D meta-analysis of coronary artery disease (CARDIoGRAMplusC4D Consortium, 20135, named "cardiogramplusc4d_1000genome" in the dataset.

4. The UK BioBank GWAS of self reported heart attack (interim release by the Neale lab), named "ukbb_6150_round2" in the dataset.

Usage

data(lipid.cad)

Format

A data.frame with 12026 rows and 24 variables.

Details

lipid.cad contains in total 24 sub-datasets, each is suitable for a Mendelian randomization study. To obtain a sub-dataset, you must decide on

lipid

Which lipid trait to consider? Either ldl, hdl, or tg.

gwas.selection

Which GWAS is used for selection? Either teslovich_2010 or mc_2013.

gwas.exposure

Which GWAS is used for exposure? Either teslovich_2010 or mc_2013 and must be different from gwas.selection.

gwas.outcome

Which GWAS is used for outcome? Either cardiogramplusc4d or ukbb_self_report_heart.

restrict

Should we use SNPs that are not associated with the other lipids? For example, if we are studying the effect of HDL cholesterol (so lipid is "hdl") and restrict is TRUE, then the SNPs are not associated with LDL cholesterol and triglycerides (p-value > 0.01 in the gwas.selection data).

qingyuanzhao/mr.raps documentation built on June 4, 2022, 3:04 a.m.