Expanding a Nextflow pipeline for histone-association studies

Project Description

The epigenome is the layer on top of the genome that regulates how genes are expressed. We developed a Nextflow pipeline that uses machine learning models, that were trained to predict gene expression from epigenome data, to find genes which are associated with specific conditions such as cancer.

Research Goals

• Adjust and expand the HAWAS pipeline to find which regions differ between groups of samples.
• Add a test to find which transcription factors are enriched in those regions.
• Test the pipeline on heart related epigenome data.

Prerequisites

• Python programming
• Ideally some knowledge about epigenomics
• Experience with Nextflow would help but not necessary

How to Apply

Send a short Email with a short motivation to the corresponding supervisor d.hecker|em.uni-frankfurt.de.