While most cells in an individual have identical genetic information, the different cell types vary extensively in their morphology and physiological characteristics. From investigation of cellular differentiation and pathological processes, it is known that profound changes of cell state are accompanied by underlying changes in gene regulation. With recent technological advances such as next generation sequencing (NGS), it has become possible to quantify gene expression genome-wide and for few or single cells. Through the development of analytical methods and software tools for the processing and interpretation of such datasets, we hope to improve our understanding of gene regulation in health and disease.

Statistical Genomics and Epigenomics

We are members of EpiGeneSys and collaborate with experimental groups using in vitro and in vivo differentiation systems to study the genetic and epigenetic regulation of gene expression and cell fate decisions.

MetastasiX – Systems Biology of Breast Cancer

We are members of MetastasiX, a SystemsX.ch project with six member groups and the aim to study and improve our understanding of cellular heterogeneity in breast cancer progression.

More information about our research


We study regulation of gene expression using high-throughput sequencing data. The heatmap here shows a re-analysis of RNA-seq data from Menet et al., 2012, showing RNA levels of oscillating genes in mouse liver.



Exon-Intron split analysis (EISA) compares changes of exonic and intronic read counts in RNA-seq data and characterizes transcriptional and post-transcriptional gene regulation.



MetastasiX – Systems Biology of Breast Cancer