On behalf of Prof. Sonnhammer. -Yves Moreau
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Postdoc position in bioinformatics:
Gene regulatory network inference of
RNA binding proteins
The goal of the project is to discover new regulatory mechanisms that control the repertoire of
RNA binding proteins (RBPs). This is a collaborative project between professors Erik
Sonnhammer and Claudia Kutter, both at SciLifeLab in Stockholm, Sweden.
SciLifeLab is a national center for large-scale life science research with an advanced
technological infrastructure. At SciLifeLab, multidisciplinary research is conducted based on
DNA sequencing, gene expression analysis, proteomics, bioinformatics, biostatistics and
systems biology. Bioinformatics and systems biology are central activities within the center.
The Sonnhammer group has extensive experience in inferring gene regulatory networks
(GRNs) and has developed several new algorithms to improve the reliability of the GRNs
inferred from perturbations.
The Kutter lab has a research focus on RNA binding proteins and
their bound RNAs, especially lncRNAs. The project aims to infer a reliable GRN from shRNARNAseq perturbation data from ENCODE data and in-house data from the Kutter lab. The
GRN will be analyzed for regulatory links in relation to known functions and lncRNA binding
and subjected to experimental validation of the scientifically most valuable links.
The project involves programming, data analysis, benchmarking, and modelling, as well as
application of the developed methods to experimental data generated by the project. The
successful candidate should be highly motivated and have a Ph.D. in bioinformatics or related
field, and good knowledge of molecular biology. Alternatively, a Ph.D. in molecular biology or
related field and 2 years of postdoctoral experience in bioinformatics research and
programming, documented by scientific publications. Demonstrable familiarity with sequence
and molecular data analysis techniques is essential. Excellent skills in computer programming
(primarily Matlab, Python, R), UNIX, and knowledge of biological database systems are
necessary merits.