Postdoc position at School of Engineering Sciences in Chemistry, Biotechnology and Health at KTH

Job description

The group of Integrative Omics and Precision Medicine is headed by Professor Mathias Uhlén and is located at SciLifeLab Stockholm. The main project of this group is the Human Protein Atlas project, where a combination of genomics, transcriptomics, proteomics and antibody-based profiling is used to study the global protein expression patterns in human cells, tissues and organs. The above-mentioned collaboration between WASP and DDLS will be performed in the context of an interdisciplinary research project entitled “Visual Analytics for Enhancing Quality and Trust in Genome-wide Expression Clustering and Annotation”, where the Systems Biology group at the Royal Institute of Technology (KTH) and the Information Visualization group at Linköping University (LiU), headed by Professor Andreas Kerren, work closely together.

There is a need for a functional genome-wide annotation of the protein-coding genes to get a deeper understanding of mammalian biology. The new data-driven strategy to be developed in the project is based on interpretable unsupervised learning (e.g., dimensionality reduction and clustering) of whole-body co-expression patterns, supported by state-of-the-art visual analytics. Interactive guiding of the clustering process will be used to explore the gene expression landscape in humans and other mammalian species, and to create a whole-body map of all protein-coding genes in all major cell types, tissues and organs. This will allow for the improvement of the quality of the classification of all protein-coding genes according to their whole-body co-expression patterns, resulting in every gene being annotated to a unique expression cluster together with other genes with a similar body-wide pattern.

The focus of this advertised Postdoc position at KTH will be on research and development of an interactive and interpretable clustering strategy to reach these goals and perform analyses of large-scale biological data. The position includes participation in the research group’s work in the Division of Systems Biology at the Department of Protein Science, KTH Solna campus and SciLifeLab. This includes the development of research networks, further development of your own scientific skills and independence, and active participation in education at all levels.

This position is part of a joint collaboration between the two largest research programs in Sweden, the Wallenberg AI, Autonomous Systems and Software Program (WASP) and the SciLifeLab and Wallenberg National Program for Data-Driven Life Science (DDLS), with the ultimate goal of solving ground-breaking research questions across disciplines.

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