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PhD / PostDoc Medical bioinformatics (m/f/d)

University of Freiburg
Freiburg im Breisgau, Baden-Württemberg (DE)
For further information, please contact us
Closing date
16 Jun 2024

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Job Type
Bioinformatician, Postdoctoral
Employment - Hours
Full time
Fixed term

The Institute of Medical Bioinformatics and Systems Medicine (IBSM) at the Medical Center – University of Freiburg is looking for the next possible date for a

PhD / PostDoc Medical bioinformatics (m/f/d)

The T-ALERT challenge focuses on the development of a robust in vitro assay or suite of assays to assess the potential risk of T cell transformation in cell therapies, particularly CAR-T and TCR-T therapies. These therapies hold promise in treating various diseases, particularly cancer, but carry inherent risks such as cell transformation and tumorigenicity. Current evaluation methods, including in vivo studies in animals, are limited in their ability to accurately predict these risks. The proposed in vitro assay aims to complement existing molecular and in silico assays to provide a more comprehensive assessment of T cell transformation. By reducing reliance on animal studies, the grant seeks to address ethical concerns and improve the efficiency of evaluating T cell therapies, potentially accelerating their development and reducing costs. Further information about T-ALERT can be found here: 
To support this endeavor, we are seeking one talented PhD student / PostDoc. The selected candidate will collaborate closely with the Institute for Transfusion Medicine and Gene Therapy in Freiburg.

We offer:

  • modern workplace and flexible working hour
  • opportunity to do research into a research group with state-of-the-art infrastructure (HPC)
  • international, multidisciplinary environment
  • opportunities for further education and training
  • hospital-standard social benefits, e.g. UKF jobticket UKF

Your challenges:

  • develop and optimize high-throughput analysis pipelines
  • integrate complex RNAseq, Whole Exome Sequencing and TCR repertoire high-throughput data
  • apply machine learning methods to build a classifier based on mRNA and WES profiles

Your profile:

  • PhD / PostDoc applicants should hold a MSc/PhD in computer science, physics, mathematics or a related discipline
  • strong Knowledge about statistical and machine learning
  • knowledge about gene editing techniques, e.g. CRISP-Cas
  • he/she should have experience in bioinformatics, including next generation sequencing pipelines, data processing, analysis and visualization
  • proficiency with programming languages such as Python, R or C++
  • prior experience in software development, Version control system (e.g. git) and containers (e.g. Docker)
  • experience with Unix/Linux
  • pro-active learning
  • ability to work independently as well as a team-member
  • excellent communication and organizational skills

Interested? Please submit your application online by klicking the "Apply now" button and including the following files:

1. Motivation letter
2. CV
3. Copy of graduation certificates
4. Copy of University grades
5. Reference letters
6. Any other relevant documents

University Medical Center Freiburg
Institute of Medical Bioinformatics
and Systems Medicine (IBSM)

Questions? Then contact us:
Geoffroy Andrieux - Junior Group Leader

General information: Salary is assigned according to a pay scale. Unless prevented by operational or legal reasons, full-time positions are generally open to those wishing to job share. Where two candidates are equally suitable for a post, severely disabled candidates are given priority. Employment decisions are made by the Personnel Department.

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