Analysis of DNA Methylation using Sequencing

Beginners

This course will cover all aspects of the analysis of DNA methylation using sequencing, including primary analysis, mapping and quality control of BS-Seq data, common pitfalls and complications.

It will also include exploratory analysis of methylation, looking at different methods of quantitation, and a variety of ways of looking more widely at the distribution of methylation over the genome. Finally, the course will look at statistical methods to predict differential methylation.

The course will be comprised of a mixture of theoretical lectures and practicals covering a range of different software packages.

Course materials are available here.

Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here.

• Graduate students, Postdocs and Staff members from the University of Cambridge, Affiliated Institutions and other external Institutions or individuals
• Further details regarding eligibility criteria are available here

Number of sessions: 1

Bioinformatics, Data visualisation, Data handing, Epigenetics

After this course you should be able to:

• Perform an analysis of methylation data all the way from raw sequencing to the selection of interesting targets
• Understand BS-Seq theory and quality control
• Use SeqMonk to visualise and analyse methylation data

During this course you will learn about:

• The theoretical basis for BS-Seq
• Processing raw sequencing data with bismark
• Visualisation and exploration of methylation calls with SeqMonk
• The theory of differential methylation calling
• Differential methylation analysis with SeqMonk and the Bioconductor package BS-Seq
• Analysing hmC with ox-BS-Seq

Presentations, demonstrations and practicals

• Free for University of Cambridge students
• £ 50/day for all University of Cambridge staff, including postdocs, and participants from Affiliated Institutions. Please note that these charges are recovered by us at the Institutional level
• £ 50/day for all other academic participants from external Institutions and charitable organizations. These charges must be paid at registration
• £ 100/day for all Industry participants. These charges must be paid at registration
• Further details regarding the charging policy are available here

1 day

A number of times per year

• Analysis of mapped NGS data with SeqMonk (ONLINE LIVE TRAINING)
• Analysis of high-throughput sequencing data with Bioconductor
• Introduction to RNA-seq and ChIP-seq data analysis