This workshop includes a hands-on lab session that will demonstrate data handling and analysis of epigenome-wide DNA methylation data generated using the Illumina Infinium BeadChip platform. In this computational lab participants will learn how to process raw methylation data, perform quality control checks, and apply standard normalization methods of data generated by the Infinium Methylation BeadChip technology. We will cover cell mixture adjustment techniques, removal of batch effects, and genomic annotation of data. Participants will learn basic high dimensional data manipulation techniques and gain practical skills using R and Bioconductor. We will implement statistical methodology for the discovery of differentially methylated loci and genomic regions across samples along with bioinformatics tools like pathways analyses to aid in the interpretation of findings. Online resources and reference materials will be introduced. This workshop will provide participants with an opportunity to analyze high dimensional DNA methylation data through the presentation of case-studies. Basic familiarity with R is strongly recommended in order to obtain the most value from this tutorial.
Presenters: Andrea Baccarelli, MD, MPH, PhD Columbia University Mailman School of Public Health,
Kasey Brennan, Mailman School of Public Health, Columbia University
Andres Cardenas, PhD Harvard T.H. Chan School of Public Health
Elena Colicino, PhD Mailman School of Public Health, Columbia University
Allan Just, PhD Icahn School of Medicine at Mount Sinai
Jia Zhong, PhD Mailman School of Public Health, Columbia University