HDMT (version 1.0.5)

snp_input: An example dataset to demonstrate the usage of 'HDMT'

Description

This example dataset is included in 'HDMT' to assess the mediation role of DNA methylation in genetic regulation of gene expression in primary prostate cancer (PCa) samples from The Cancer Genome Atlas (TCGA) with risk SNPs as the exposure.

The dataset is a matrix containing two columns of p-values for candidate mediators. Column 1 contains the p-values for testing if an exposure is associated with the mediator (alpha!=0). Column 2 contains the p-value for testing if a mediator is associated with the outcome after adjusted for the exposure (beta!=0).

Usage

data("snp_input")

Format

The format of snp_input is: num [1:69602, 1:2] 0.106 0.999 0.101 0.173 0.89 ...

References

James Y. Dai, Janet L. Stanford, Michael LeBlanc. A multiple-testing procedure for high-dimensional mediation hypotheses, Journal of the American Statistical Association, 2020, DOI: 10.1080/01621459.2020.1765785.

Examples

# NOT RUN {
data(snp_input)
dim(snp_input)

# }