ESR10-DE: Model-driven discovery and network modelling of peroxisomal interactions

Reference: ESR10-DE

Are you fascinated by biology and bioinformatics in a dynamic company setting? A PhD position is available at the Data Analytics company Lifeglimmer GmbH, Berlin, Germany.
Project title: Model-driven discovery and network modelling of peroxisomal interactions

  • To identify novel transporter proteins using whole genome searches, analysis of protein sequences of newly identified proteins by bioinformatics tools, including structure prediction.
  • Carry out bioinformatics analysis for domains/transmembrane regions rational design of proteins in yeast
  • Define flux distributions and phenotypes in altered growth/beta oxidation capacity through metabolomics and modelling (mammalian/human cells)
  • Unravel peroxisomal crosstalk by systems biology approaches
  • Semantically integrate heterogeneous datasets

Location: Berlin, Germany
Supervisor: Prof. Dr. V. Martins dos Santos (
Co-supervisors: Prof. Dr. B.M.  Bakker, University Medical Center Groningen & Prof. Dr. B. Warscheid, University of Freiburg
Planned secondments: KU LEUVEN, University Medical Center Groningen, University of Freiburg
Required subject specific skills and expertise:

  • Master degree or equivalent in Computational Biology, Bioinformatics,  Systems Biology, Bio(techno)logy or related field;
  • Solid knowledge of bioinformatics;
  • Basic knowledge in (genome-scale) metabolic modelling;
  • Good understanding of molecular biology/biochemistry;
  • Experience in pathway analyses and/or omics data integration would be of advantage;
  • Experience in analysing omics data as well as interpretation of their biological implications;
  • Basic knowledge of common methods of functional genomics;
  • Experience in discussing results of computational analyses in collaboration with wet-lab scientists;
  • Good programming skills in R (Matlab) and experience in at least one other programming language (Python, Perl, Java, C++);
  • Knowledge of semantic web technologies (XML, RDF, SPARQL) would be an asset;
  • A pragmatic and solution oriented working style;
  • Enthusiasm for communicating with various project partners;

Application deadline: 17/02/2019
Starting date:  April 1, 2019

Application form ESR10

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grant number 812968