Charité - University Medicine Berlin

PhD Student (Wissenschaftliche*r Mitarbeiter*in)

Charité - University Medicine Berlin

Berlin, Germany

The Charité – Universitätsmedizin Berlin is a joint medical faculty, which serves both Freie Universität Berlin and Humboldt Universität zu Berlin. As one of the largest university hospitals in Europe with an important history, it plays a leading role in research, teaching and clinical care. The Charité university hospital has also made a name for itself as a modern business with certifications in the medical, clinical and management fields.

PhD candidate in

Berliner Institut für Gesundheitsforschung and Charité – Universitätsmedizin Berlin

Charité Campus Mitte

The newly funded research unit “Beyond the Exome” aims to identify, analyze, and predict the disease potential of non-coding DNA variants in patients with rare genetic diseases. The unit is joint between the three Berlin institutions Charité University Hospital, the Humboldt University, and the Max Delbrück Center (MDC) for Molecular Medicine. Our research focuses on how non-coding regulatory mutations and structural variants in the human genome cause rare genetic disease. The unit consists of twelve principal investigators from the diverse fields clinical medicine, genetics, biophysics, cell and molecular biology, bioinformatics, computer science, and machine learning.

Beyond The Exome’s Genome Informatics research group at the Berlin Institute of Health/Charité is offering one fully funded PhD position in algorithmic bioinformatics. The group develops computational methods for the analysis of high-throughput sequencing data, with a focus on adopting string matching algorithms and data structures for building novel methods that identify complex types of genomic variation in large amounts of sequence data. The genuinely multidisciplinary research context provided by Beyond The Exome provides the ideal environment that will enable us to apply our new methods to clinical data. For more information on the project, research unit, and the Genome Informatics group, please visit our websites at and

Your area of responsibility:

  • Develop and implement novel computational methods for the identification of germline structural variation.
  • Adopt string matching algorithms and data structures for linked-read sequence data analysis.
  • Apply your methods to whole-genome sequencing data sets from rare disease patients.
  • Collaborate with interdisciplinary partners at home and abroad.

Your profile:

  • Master’s degree in computational biology, bioinformatics, computer science, statistics, or a related field.
  • A thorough understanding of string matching algorithms and data structures, e.g. dynamic programming, indexing, assembly graphs, is essential.
  • Proficiency in a programming language such as C++, Java, or Python.
  • A strong, genuine interest in working with genomic data.
  • Ability to work in a multidisciplinary team and communicate across subject boundaries.
  • Professional, scientific proficiency in oral and written English

Ref. no.: DM.184.19
Start: March 1, 2020
Length of employment: 3 years
Working time: 39 hours/week

Pay scale: E13 Acc. to collective agreement TVöD VKA-K
Employees are grouped into pay scales according to their qualifications and personal requirements. You can find our collective bargaining agreements (Tarifverträge) here:

For questions about the project and the position, please contact

Applications including the application form found at, a one page motivation letter, CV, reference letters, abstracts of Bachelor’s and Master’s theses, and certificates, should be submitted by email to by March 1, 2020.

makes its human resources decisions based on suitability, competence and professional performance. At the same time, it strives to increase the percentage of women in management positions and takes this into consideration where candidates are equally qualified within the limits of what is legally possible. Applications from people with a migrant background are also explicitly welcome. Severely disabled applicants are given preferential consideration in the case of candidates with equal qualifications. An extended certificate of conduct must be submitted. Any travel expenses incurred cannot be reimbursed.

DATA PROTECTION NOTICE: Charité points out that personal data is stored and processed as part of the application process in different areas of Charité (e.g. faculty, staff committee, human resources department). Furthermore, the data may be transferred or processed within the group as well as in locations outside the group (e.g. authorities) to protect legitimate interests. By applying, you agree to our data protection regulations and terms of use, which you can find here:

Apply with CV and Cover Letter

Must be a .doc, .docx, or .pdf file and no larger than 1MBMust be a .doc, .docx, or .pdf file and no larger than 1MB

PhD Student (Wissenschaftliche*r Mitarbeiter*in)