What we do

Our group is located in the Department of Biomedicine (DBM) at the University of Basel. We collaborate with scientists from DBM on projects covering a broad spectrum of research topics, from cellular differentiation and evolutionary biology to the identification of a molecular basis for various human diseases. To do this, we focus on the analysis, interpretation and visualization of expression, epigenetic and genomic data, which are mainly derived from next-generation sequencing experiments.

Core facility activities

Our core facility provides a centralized resource of expertise in computational biology and statistics to all researchers at the DBM. We are helping our scientists with the analysis, interpretation and visualization of expression, epigenetic and genomic data, mainly derived from next generation sequencing experiments. Beside the standardized approaches, the platform can also provide customized solutions tailored towards the needs of individual research projects. The Bioinformatics Core Facility is individually training and advising researchers at the DBM. The facility also organises bioinformatics trainings in collaboration with computational biologists from the Friedrich Miescher Institute for Biomedical Research.

Here are some of the key services we provide (also see here):

  • Consultancy on experimental design of genomics experiments;
  • Data analysis and visualization with focus on large-scale genomics and proteomics;
  • Consulting in statistics and programming in R.

Main publications 2019

  • Klein F et al.
    The transcription factor Duxbl mediates elimination of pre-T cells that fail β-selection
    Journal of Experimental Medicine, doi: 10.1084/jem.20181444
  • Trefny MP et al.
    A Variant of a Killer Cell Immunoglobulin-like Receptor Is Associated with Resistance to PD-1 Blockade in Lung Cancer
    Clin Cancer Res, doi: 10.1158/1078-0432.CCR-18-3041
  • Ishay-Ronen D et al.
    Gain Fat—Lose Metastasis: Converting Invasive Breast Cancer Cells into Adipocytes Inhibits Cancer Metastasis
    Cancer Cell, doi: 10.1016/j.ccell.2018.12.002

Find out more about the Group’s activities

Members

University basel

Robert Ivanek
DBM Bioinformatics Core Facility
University of Basel and University Hospital Basel
Group Webpage

Domain(s) of activity:

  • Systems biology
  • Core facility and competence centre
  • Biostatistics
  • Epigenetics
  • Functional genomics
  • Single-cell biology
  • Transcriptomics

Domain(s) of application:

  • Basic research

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