What we do

We study gene regulation through the analysis and modelling of genome-wide datasets. We collaborate closely with experimental researchers on various biological topics, including cancer progression, chromatin biology and cellular differentiation, using data from various aspects of gene expression, such as DNA methylation and RNA transcription in single cells, measured by high-throughput sequencing. Our aim is to better understand how the different layers of epigenetic, transcriptional and post-transcriptional regulation interact and contribute to the control of gene expression.

Find out more about the Core Facility's activities

Main publication 2018

  • Ostapcuk V et al.
    Activity-dependent neuroprotective protein recruits HP1 and CHD4 to control lineage-specifying genes.
  • Kumari P et al.
    Evolutionary plasticity of the NHL domain underlies distinct solutions to RNA recognition.
    Nat Commun.
  • Fassnacht C et al.
    The CSR-1 endogenous RNAi pathway ensures accurate transcriptional reprogramming during the oocyte-to-embryo transition in Caenorhabditis elegans.
    PLoS Genet.

Find out more about the Group’s activities


Epigenesys - European Community-funded Network of Excellence in the fields of epigenetics and systems biology.
MetastasiX - Systems Biology of Breast Cancer, MRD project of the Swiss Initiative for Systems Biology (SystemsX.ch)


University basel

Michael Stadler
FMI Computational Biology Group
Friedrich Miescher Institute, Basel
Group Webpage

Domains of activity:

  • Genes and genomes
  • Core facilities and competence centres
  • DNA Microarrays
  • Epigenetics
  • Functional genomics
  • Gene regulation
  • Oncology
  • Single-cell biology
  • Software engineering
  • Systems biology
  • Transcriptomics

Domain of application:

  • Basic research
  • Medicine and health