PhD student in Bioinformatics

Stockholm University

Application deadline

October 21, 2021

PhD student in Bioinformatics

Your studies in Bioinformatics will be in the project: “Gene regulatory network inference”.

The goal of the project is to develop and apply methods for inference of accurate and predictive gene regulatory networks (GRNs). The Sonnhammer group has extensive experience in GRN inference and has developed several algorithms to improve the reliability of the GRNs inferred from perturbations. The toolkit includes the GeneSpider package for GRN and data generation, which is used for GRN inference benchmarking with controlled network and data properties. The NestBoot GRN inference algorithm was devised to control the false discovery rate of network links. The project aims to develop new methods and improve existing methods to make them more reliable and scalable.  They will be applied to perturbation data from public sources such as ENCODE as well as in-house data. The inferred GRNs will be analysed for productiveness and how well they reproduce known links. The project involves programming, data analysis, benchmarking, and application of the developed methods to experimental data generated by the group.

The successful candidate must be highly motivated and have a M.Sc. in bioinformatics or related field, and knowledge of molecular biology. Alternatively, a M.Sc. in molecular biology or related field and at least 1 year of documented practical experience in bioinformatics research and programming. Demonstrable familiarity with sequence and molecular data analysis techniques is essential. Computer programming with Matlab, Python, R, (Perl, C++, Java), UNIX skills, and knowledge of biological database systems are necessary merits.

To apply, go to, and PhD Student Positions, closing date 21 September 2021.

For further information about the research project, contact,

Last updated: 2021-09-24

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