PrCa.lipids: Real data for selecting the metabolites for the risk of...

In USCbiostats/hJAM: Hierarchical Joint Analysis of Marginal Summary Statistics

Real data for selecting the metabolites for the risk of prostate cancer

Description

Real data for selecting the metabolites for the risk of prostate cancer

Format

The PrCa.lipids is a set of data sets which was for selecting the metabolites for the risk of prostate cancer

PrCa.lipids.marginal.Amatrix

The marginal \hat{A} matrix with 118 metabolites and 144 SNPs. This data is directly adapted from https://github.com/verena-zuber/demo_AMD (Zuber et al., 2020)

PrCa.lipids.Amatrix

The conditional \hat{A} matrix with 118 metabolites and 144 SNPs, which was composed by SuSiE JAM and the marginal \hat{A} matrix.

PrCa.lipids.Geno

The reference genotype data for the 144 SNPs from the European-ancestry population in 1000 Genome Project (Consortium, 2015).

PrCa.lipids.betas.gwas

The b vector. The association estimates between selected SNPs and the risk of prostate cancer from (Schumacher et al., 2018)

PrCa.lipids.betas.se.gwas

The se(b) vector from (Schumacher et al., 2018)

PrCa.lipids.pvalue.gwas

The pvalues vector of the association estimates between selected SNPs and the risk of prostate cancer from (Schumacher et al., 2018)

PrCa.lipids.maf.gwas

The vector of the effect allele frequency of the SNPs from (Schumacher et al., 2018)

PrCa.lipids.rsid

The RSID of the SNPs.

References

Consortium GP. A global reference for human genetic variation. Nature 2015; 526: 68.

Zuber, Verena, et al. Selecting likely causal risk factors from high-throughput experiments using multivariable Mendelian randomization. Nature communications 11.1 (2020): 1-11.

Schumacher, Fredrick R., et al. Association analyses of more than 140,000 men identify 63 new prostate cancer susceptibility loci. Nature genetics 50.7 (2018): 928-936.

USCbiostats/hJAM documentation built on Jan. 26, 2024, 5:27 p.m.