Postdoc Position in Bioinformatics / Analysis of multi-omics single-cell data (f/m/d)

Institution
Faculty of Veterinary Medicine - Biomedical Center/Department Physiological Chemistry
Start date
As soon as possible
Application deadline
15 Feb 2021
Remuneration group
TV-L 13 or 14
Contract duration
The initial contract will be for 2 years with the possibility of a 3-year extension.

Tasks and responsibilities

Co-supervised by Nicolai Siegel (LMU Munich) and Maria Colomé-Tatché (Helmholtz Zentrum Munich, Institute of Computational Biology), the successful candidate will work on two major projects:

a) The establishment of genome and meta-genome assembly pipelines allowing the generation of de novo phased genome assemblies, the identification of nucleotide modifications using long-read technologies and the analysis of 3D genome architecture with Hi-C data.

b) The establishment of pipelines for the analysis of multi-omics single-cell data.

Your profile

The Siegel lab is interested in the molecular mechanisms leading to cell-to-cell heterogeneity in pathogen populations. We are specifically interested in how changes in chromatin structure and 3D genome architecture affect antigen expression at the single-cell level. To study these questions, we use Trypanosoma brucei, a unicellular parasite that causes human sleeping sickness in Sub-Saharan Africa, and numerous system-wide approaches such as single-cell RNA-seq, ATAC-seq, ribosome-profiling, high-resolution ChIP-seq and Hi-C.

Recent publications from our lab include:
• Müller et al. Nature, 2018 https://doi.org/10.1038/s41586-018-0619-8
• Kraus et al. Nature Communications, 2020 https://doi.org/10.1038/s41467-020-15274-0
• Faria et al. Nature Microbiology, 2020 https://doi.org/10.1038/s41564-020-00833-4

As the Siegel lab, the successful candidate will be located at the newly built Biomedical Center (BMC). Numerous in-house core facilities ensure access to state-of-the-art equipment, including a high-performance computing system.
Further information can be found at: http://siegel-lab.de or http://www.en.bmc.med.uni-muenchen.de/

The Colomé-Tatché lab develops computational methods and algorithms for the analysis and interpretation of epigenomic data. The main interests are understanding how different epigenomes emerge, how stable epigenetic changes are, and how they lead to different phenotypes. The lab has a special focus on single-cell data, in particular single-cell chromatin architecture and DNA methylation, and its interplay with single-cell gene expression.
For further information see: https://www.helmholtz-muenchen.de/icb/institute/staff/staff/ma/4876

Requirements

  • PhD in bioinformatics or the life sciences with extensive experience in NGS data analysis and statistics
  • Proficiency in using the Unix shell, in programming/scripting languages (R and Python) and in handling large datasets
  • Interest in applying for research grants, leading bioinformatics projects and training junior scientists
  • Ability to work self-motivated and as a team player in an international environment
  • Excellent verbal and written English skills
  • Experience with the analysis of single-cell data is advantageous but not required

Benefits

Wir bieten Ihnen eine interessante und verantwortungsvolle Tätigkeit mit guten Weiterbildungs- und Entwicklungsmöglichkeiten. Die Bewerbung von Frauen wird begrüßt.

Also possible in a part-time capacity.

People with disabilities who are equally as qualified as other applicants will receive preferential treatment.

Contact

Please send your application (motivation letter, CV, names of two referees and transcripts in one PDF) citing “21/01” in the subject line by email to Prof. Dr. Nicolai Siegel, Professor for Molecular Parasitology, Ludwig-Maximilians-Universität, Biomedical Center Munich / Department of Physiological Chemistry:

Email: n.siegel@lmu.de

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