Epigenetics

DNA methylation is an epigenetic mechanism used by higher eukaryotes and involved in e.g. gene expression, X-Chromosome inactivating, imprinting, and gene silencing of germline specific gene and repetitive elements.

Requirements

Before diving into this topic, we recommend you to have a look at:

• Introduction to Galaxy Analyses
• Sequence analysis
  • Quality Control: slides slides - tutorial hands-on
  • Mapping: slides slides - tutorial hands-on

Material

Galaxy instances

You can use a public Galaxy instance which has been tested for the availability of the used tools. They are listed along with the tutorials above.

You can also use the following Docker image for these tutorials:

docker run -d -p 8080:80 quay.io/galaxy/epigenetics-training

It will launch a flavored Galaxy instance available on http://localhost:8080.

Maintainers

This material is maintained by:

• Joachim Wolff
• Devon Ryan

For any question related to this topic and the content, you can contact them or visit our Gitter channel.

Contributors

This material was contributed to by:

• Joachim Wolff
• Yvan Le Bras
• Devon Ryan
• Katarzyna Murat
• Krzysztof Poterlowicz
• Fidel Ramirez
• Vivek Bhardwaj
• Ekaterina Polkh

References

• I-Hsuan Lin: Hierarchical Clustering of Breast Cancer Methylomes Revealed Differentially Methylated and Expressed Breast Cancer Genes