EU-LIFE

Building and promoting Excellence in Life Sciences in Europe
Building and promoting Excellence in Life Sciences in Europe

Postdoc Bioinformatician Agami group

Description

Your function within the department

The research group of Reuven Agami at the division of Oncogenomics aims at the identification of novel cellular vulnerabilities that can be exploited for cancer therapies. For this purpose, we develop innovative genomic and genetic tools. Key targets are non-coding RNAs, mRNA translation, and enhancers. In particular, we employ novel unbiased functional genetic screening approaches (based on own CRISPR and RNAi tools), perform mechanistic studies to understand their connection with the cancerous phenotype, and use this information for the development of innovative cancer therapeutic approaches.

The project

Three main themes are currently running in the lab:

  • We analyse ribosome profiling data to identify tumour-specific amino acid vulnerability (see Loayza-Puch Nature 2016 for more details).
  • We perform CRISPR-Cas9 based functional screens to study the role of regulatory DNA elements in cancer (see Korkmaz et al., Nature Biotechnology 2016). This involves custom design of CRISPR libraries, and the analysis of ChIP-Seq and RNA-Seq data.
  • We study the importance of the epi-transcriptome (RNA modifications) to gene expression, and its influence on cancer progression (see Slobodin B et al., Cell 2017). RIP-Seq and RNA-seq analyses are mostly used.
  • Altogether, these projects generate a substantial amount of data which requires a thorough bioinformatics and statistical analysis.

Your profile

We seek to recruit an ambitious postdoc, capable of independent thinking, with a strong commitment to science, and a solid experience in bioinformatics and statistics tools. We expect you to be highly self-motivated, creative, able to work in a team. General background knowledge in biology is essential, and basic understanding of cancer-related molecular processes is an advantage.

Your career opportunities and terms of employment

You will join an international research team in a stimulating and interactive research environment. You will have access to unique data coming from our experiments, and you will have the opportunity to follow high-quality courses offered by the NKI postdoc career development program.  Your temporary employment will be for a period of 4 years. We offer a competitive salary (including possibilities for additional tax-reduction) and housing facilities in the vicinity of the institute. The gross salary per month will be from € 3.421,- to € 3.840,- according to the FWG-function group 55, depending on education and previous experience.

The terms of employment will be in accordance with the CAO Ziekenhuizen (Collective Labour Agreement for Hospitals).
 

Interested?

For further information please visit our home page (http://research.nki.nl/agamilab/ and https://www.nki.nl/divisions/oncogenomics/agami-r-group/) or contact Prof. Reuven Agami at tel. +31 20 5122079 or e-mail: r.agami@nki.nl

When applying, please include a list of your publications and the contact details of 2 referees.

Selected reading
Loayza-Puch, F., K. Rooijers, L.C. Buil, J. Zijlstra, J.F. Oude Vrielink, R. Lopes, A.P. Ugalde, P. van Breugel, I. Hofland, J. Wesseling, O. van Tellingen, A. Bex, and R. Agami, Tumour-specific proline vulnerability uncovered by differential ribosome codon reading. Nature, 2016. 530(7591): p. 490-4.

Korkmaz, G., R. Lopes, A. P. Ugalde, E. Nevedomskaya, R. Han, K. Myacheva, W. Zwart, R. Elkon and R. Agami (2016). "Functional genetic screens for enhancer elements in the human genome using CRISPR-Cas9." Nat Biotechnol 34(2): 192-198.

Slobodin, B., R. Han, V. Calderone, J.A. Vrielink, F. Loayza-Puch, R. Elkon, and R. Agami, Transcription Impacts the Efficiency of mRNA Translation via Co-transcriptional N6-adenosine Methylation. Cell, 2017. 169(2): p. 326-337 e12.

How to apply

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