Functieomschrijving
Single cell RNA sequencing is revolutionizing our possibilities to understand processes underlying development and disease. The analysis of the data is nevertheless challenging, both technically and at the level of obtaining meaningful biomedical insights from the data. Given the continued development of the experimental protocols it also provides ample opportunities to develop new analysis methods. We already have ample experience in the analysis of scRNA data in the context of vaccine research.
In this project we aim to expand our expertise to analyze scRNAseq data from two projects, 1) the DETECTIVE: in this project scRNAseq will be used to detect and analyze pathogenic T-cells in blood and tissues of patients with systemic autoimmune disease. The goal is to assist development of pathogenic T-cell targeting treatments by identifying T-cell populations specific to disease. 2) the HNF1B switch: in this project scRNAseq will be applied to kidneys of HNF1B KO mice to determine the effects of this transcription factor on kidney cyst formation and electrolyte disorders. The goal is to determine which pathways drive cyst formation. You will first work on the T-cell project and then on the kidney cysts formation project. Besides the primary analysis of the data for the primary research questions there will be ample opportunity for in depth analysis of the scRNAseq datasets to e.g. determine the transcription factors relevant to the clinical and experimental contrasts.
Your job includes, besides the scientific research, also regular communication with the scientific partners in the project. To ensure good transfer of knowledge, data and software, the Radboud Technology Center Bioinformatics (part of the CMBI) will aid with pipeline development, data management and project cooperation.
Tasks and responsibilities
- Analyze scRNA data from the DETECTIVE project and the HNF1B projects to identify cell types and genes associated with the clinical and experimental contrasts.
- Develop and implement new methods to allow functional interpretation of scRNA data.
- Communicate and collaborate with the experimental groups involved in the project.
- Reporting your results in the form of publications and presentations.
- Apply data management and open source/science principles to software development.
You have obtained a PhD in computational biology/bioinformatics or in experimental molecular biology with a documented experience in computational analysis of 'omics types of data. You are enthusiastic for understanding and developing of scRNA data analysis methods. You have strong communication skills and a collaborative mindset.
Conditions
Working at Radboud university medical center means that you are ahead of the curve and working together on the healthcare of the future. And there is more. Our secondary terms of employment are impressive. These are fully tailored to you thanks to our Employment Conditions Selection Model. At Radboud university medical center, you will be given trust, and you will take the responsibility to handle everything together. We provide annual courses, both professional and personal.
- In addition to your monthly salary and an annual vacation allowance of 8%, you will receive an end-of-year bonus of 8.3%.
- If you work irregular hours, you will receive an allowance.
- As a full-time employee (36 hours per week), you are entitled to approximately 168 vacation hours (over 23 days) per year.
- Radboud university medical center pays 70% of the pension premium. You pay the rest of the premium with your gross salary.
- You get a discount on health insurance as well: you can take advantage of two group health insurance plans. UMC Zorgverzekering and CZ collectief.
In addition to our
terms of employment, we also offer employees various other
attractive facilities, such as childcare and sports facilities. Want to learn more? Take a look at the
CAO UMC.
Additional information
All additional information about the vacancy can be obtained from
Prof. Dr. Martijn Huijnen. Use the Apply button to submit your application.
See for more information the
website about the CMBI.
