Exposure to arsenic at different life-stages and DNA methylation meta-analysis in buccal cells and leukocytes

This repository contains the necessary scripts to reproduce the analysis of Bozack et al.'s "Exposure to arsenic at different life-stages and DNA methylation meta-analysis in buccal cells and leukocytes".

The organization of the repository is as follows:

• The bangladesh-study folder contains the scripts and results associated with the Bangladesh DNAm studies.
• The chile-study directory is made up of subdirectories containing the code and results associated with the buccal cell and the PBMC DNAm analyses. It also holds a directory with notebooks assessing the within-participant buccal-PBMC sample similarities, and a directory with a notebook of descriptive statistics used to create Table 1 in the accompanying paper.
• The DMR-meta-analysis folder contains the DMR-meta-analysis.Rmd notebook, which details the meta-analysis procedure and summarized the results output by comb-p.
• The helper-scripts directory contains multiple helper files used to perform the analyses described in the paper.

Below is a schematic of the data processing and analysis pipeline.

Citation:

Bozack AK, Boileau P, Wei L, et al. 2021. Exposure to arsenic at different life-stages and DNA methylation meta-analysis in buccal cells and leukocytes. Environ Health. 20(1):79. doi: 10.1186/s12940-021-00754-7. PMID: 34243768