Bioinformatiker*innen / Computational Life Wissenschaftler*innen

Employer
Charité – Universitätsmedizin Berlin
Location
Berlin (DE)
Salary
TVöD VKA-K
Posted
April 16 2019
Ref
CC04-BIH-06.19
Organization Type
Healthcare/Hospital

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.

1-5 BIOINFORMATICIANS / COMPUTATIONAL LIFE SCIENTISTS (M/F)

Digital Health Centre, Berlin Institute of Health

Charité Campus Mitte

The Digital Health Centre, headed by Prof. Roland Eils, conducts innovative healthcare research with a strong focus on computational methods including application and development of big-data analytical methods, artificial intelligence and deep learning. We have recently moved our lab to Berlin and are looking rebuild our multi-disciplinary team of ambitious scientists to apply computational analytical methods to medical multi-omics, clinical and imaging data. We are leaders in international projects (Human Cell Atlas, International Cancer Genome Consortium) and European life science networks (de.NBI, ELIXIR, European Open Science Cloud). We have state-of-the-art computational resources including in-house HPC, cloud, GPGPU (2 x Nvidia DGX1) and FPGA technology. With access to vast amounts of data and computational resources, we aim to address important questions pertaining to precision medicine, interplay of multi-omics data and environmental/lifestyle factors, and methods development.

YOUR AREA OF RESPONSIBILITY

The research group of Roland Eils provides a dynamic, challenging, and rewarding research environment. Your responsibilities are primarily to undertake excellent scientific research, while paying attention to career development and community engagement including the following:

Working in a highly collaborative research environment

  • Closely collaborate with  other research scientist within and outside the group to develop methods and/or analyse biomedical data
  • Closely collaborate with other bioinformatics developers on system implementation and deployment on internal systems and the cloud
  • Focused on application and development of novel computational methods, and awareness of community standards (e.g. GA4GH)

Science communication

  • Publishing research papers in both peer-review and archival journals
  • Publishing novel methods arising from answering research questions

Training and professional development

  • Attend training courses as required, and presenting at international conferences/workshops
  • Generating own or adapting existing training material
  • Post-docs are expected to apply for third party funding as part of their own career development

YOUR PROFILE

  • Ambitious, self-driven, a thirst for answering scientific questions and aim to build a scientific career in biomedical data science research
  • A PhD or post-doc candidate with an academic background in computer science, biotechnology, cancer genomics, physics, medicine, or similar
  • Strong quantitative skills and a keen interest in pursuing computational projects
  • Excellent programming proficiency especially in Python, R, Julia, Javascript, bash or similar
  • Experience with machine learning methods (e.g. Random Forest, NMF, xNN, VAE) and frameworks (e.g. PyTorch, TensorFlow, Keras, Caffe)
  • Experience with next generation sequencing data analysis
  • Experience or interest in single cell 'omics and imaging applications to biomedical research
  • Experience with linux based HPC or cloud environments
  • Experience in designing and implementing data analysis pipelines
  • Fluent in English (written and spoken)

Qualifications – desirable

  • Prior experience in working with single cell ‘omics data, liquid biopsies, or cancer genomics data
  • Experience in data visualization, integration and interpretation of large heterogeneous datasets
  • Able to work with code repositories (git, SVN) and literate programming platforms (e.g. Jupyter, R notebook)
  • Grasp of CWL, WDL or another workflow language, and workflow management platforms (e.g. Cromwell, Funnel, snakemake)

REF.NO.:

CC04-BIH-06.19

START:

immediately

LENGTH OF EMPLOYMENT:

3 years

WORKINGTIME:

39 hrs/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: https://www.charite.de/en/careers/

Please send your application quoting the reference numer to:

Charité – Universitätsmedizin Berlin

naveed.ishaque@charite.de

Please only send documents electronically.

For further information please contact Mr. Naveed Ishaque, naveed.ishaque@charite.de +49 (0)30 450 543096.