Position: Bioinformatician / Computational Biologist

Department: German Human Genome-Phenome Archive (GHGA)

Code number: 2020-0348

The German Cancer Research Center is the largest biomedical research institution in Germany. With more than 3,000 employees, we operate an extensive scientific program in the field of cancer research.

For the recently launched infrastructure initiative German Human Genome-Phenome Archive (GHGA, www.ghga.de) we are looking for a bioinformatician / computational biologist. Together with 16 scientific partners, the DKFZ is currently setting up GHGA as part of the national program for research data infrastructures (NFDI, www.nfdi.de). A core mission of GHGA is to implement and operate a national node of the federated architecture of the European Genome Phenome Archive (EGA, www.ebi.ac.uk/ega). Local PIs in the network include Ivo Buchhalter, Daniel Hübschmann, Martin Lablans, Peter Lichter & Oliver Stegle.

In order to develop the GHGA software platform into a state-of-the-art infrastructure for secure exchange of genome data and a standardized data processing hub, we are looking for an experienced bioinformatician. The position will be associated both with the GHGA office and the Division of Computational Genomics and Systems Genetics (Head: Oliver Stegle).

 

Job description:

We are looking for a bioinformatician or computational biologist to implement and maintain data processing and analysis workflows for GHGA. The job will involve implementing a standardized data processing framework that utilizes workflow languages, containerized softwares, and benchmarking. The applications will range from basic data QC and processing to complex variant calling workflows and data integration methods. The successful candidate will be part of an interdisciplinary research and data management team developing and applying a diverse range of state-of-the-art methodology to implement and maintain the bioinformatics workflows. This will be done in close cooperation with the participating GHGA institutions and other (inter)national partners. We are looking for a range of profiles, including workflow and cloud specialists.

Your responsibilities (will be distributed in a small team):

  • Implementing and monitoring a standardized pipeline management framework on cloud environment
  • Workflow development and maintenance for NGS data processing and analysis including:
    • Alignment
    • Somatic and germline variant calling (SNV, Indel, SV, CNV, …)
    • Data integration and visualization
  • Improvement of bioinformatics workflows with respect to performance and stability
  • Testing/benchmarking workflows with cloud deployments
  • Development of cloud images for (human) bioinformatics

Requirements:

  • Master's degree or equivalent qualification in bioinformatics, computational biology, computer science, statistics, mathematics, or similar background with experience in computational biology/bioinformatics/software development
  • Experience with software containerization tools like Docker, Singularity
  • Experience with workflow management tools like CWL, WDL, Snakemake
  • Proficiency with UNIX-based systems and relevant programming languages such as Python
  • Previous experience in developing and maintaining complex genomics workflows

Expertise in NGS, workflow management systems, informatics, software development and cloud computing is beneficial, as is communicating results and ideas to colleagues and (inter)national collaboration partners. The ideal applicant should have demonstrated the ability to work independently and creatively. 

We offer:

  • Interesting, versatile workplace
  • International, attractive working environment
  • Campus with modern state-of-the-art infrastructure
  • Salary according to TV-L including social benefits
  • Possibility to work part-time
  • Flexible working hours
  • Comprehensive further training program

Earliest Possible Start Date: as soon as possible

Duration: The position is initially limited to 2 years with the possibility of prolongation.

The position can in principle be part-time.

Application Deadline: 11.02.2021

Contact:

Dr. Jan Eufinger
Phone +49 (0)6221/42-3442

Please note that we do not accept applications submitted via email.


The DKFZ is committed to increase the proportion of women in all areas and positions in which women are underrepresented. Qualified female applicants are therefore particularly encouraged to apply.

Among candidates of equal aptitude and qualifications, a person with disabilities will be given preference.

To apply for a position please use our online application portal (https://www.dkfz.de/en/stellenangebote/index.php).

We ask for your understanding that we cannot return application documents that are sent to us by post (Deutsches Krebsforschungszentrum, Personalabteilung, Im Neuenheimer Feld 280, 69120 Heidelberg) and that we do not accept applications submitted via email. We apologize for any inconvenience this may cause.