Postdoctoral Position in Bioinformatics to study Gene Regulatory Networks

The successful candidate will join our ongoing SNF funded research projects and closely interact with the experimentalists in the group. This should generate significant synergies, which increases the chance of innovative research and publications (see below). In particular, the bioinformatics postdoctoral fellow will be involved in novel studies from the moment of study design in collaboration with the wet lab scientists. To study the interactions among transcription factors that control the expression of shared target gene networks, we are setting up R apid I mmunoprecipitation M ass spectrometry of E ndogenous protein (RIME) for key epitope-tagged transcription factors. This will require establishment of standards and a bioinformatics pipeline in close collaboration with the experimentalists. In follow-up studies candidate interaction partners will be verified which requires further omics studies, GRN construction and network analysis.

A second main focus of our research is state-of-the-art comparative analysis of large-scale omics datasets such as total and single-cell RNA-seq generated from limb buds from mouse and other species. To gain insight into differential transcriptional regulation, RNA-seq analysis is combined with chromatin structure and epigenetic marker analysis using ChIP-seq, capture-HiC, total and single cell ATAC-seq and available datasets from other resources. This will allow us to gain insight into systems robustness and the plasticity underlying diversification and is complementary to the proteomics studies. Finally, the bioinformatician is the group’s liaison to the Departmental Bioinformatics Core Facility. He/she also supervises the group’s data storage and project hubs at the University of Basel SciCore Center (http://scicore.unibas.ch/ ).