DNA Methylation Data Analysis
How to use bisulfite-treated sequencing to study DNA methylation
Link: DNA Methylation Workshop
When? 2-5 November 2020
Where? PC-College, Stresemannstraße 78, 10963 Berlin, Germany
Scope and Topics
The purpose of this workshop is to get a deeper understanding of the use of bisulfite-treated DNA in order to analyze the epigenetic layer of DNA methylation. Advantages and disadvantages of the so-called 'bisulfite sequencing' and its implications on data analyses will be covered. The participants will be trained to understand bisulfite-treated NGS data, to detect potential problems/errors and finally to implement their own pipelines. After this course they will be able to analyze DNA methylation and create ready-to-publish graphics.
By the end of this workshop the participants will:
- be familiar with the sequencing method of Illumina
- understand how bisulfite sequencing works
- be aware of the mapping problem of bisulfite-treated data
- understand how bisulfite-treated reads are mapped to a reference genome
- be familiar with common data formats and standards
- know relevant tools for data processing
- automate tasks with shell scripting to create reusable data pipelines
- perform basic analyses (call methylated regions, perform basic downstream analyses)
- plot and visualize results (ready-to-publish)
- be able to reuse all analyses
- biologists or data analysts with no or little experience in analyzing bisulfite sequencing data
Included in the Course
- Course materials
- Conference Dinner
- Dr. Helene Kretzmer (Max Planck Institute for Molecular Genetics) is working on DNA methylation analyses using high-throughput sequencing since 2011. She is responsible for the bioinformatic analysis of MMML-Seq study of the International Cancer Genome Consortium (ICGC).
- Dr. Christian Otto (ecSeq Bioinformatics GmbH) is one of the developers of the bisulfite read mapping tool segemehl and is an expert on implementing efficient algorithms for HTS data analyses.