Postdoc and Research Assistant in Computational Biology (Uppsala University) with a focus on feature inference from single-cell and spatial transcriptomics data

Posted on March 20th,

Postdoc: https://uu.varbi.com/en/what:job/jobID:795983/
Research Assistant: https://uu.varbi.com/en/what:job/jobID:805566/
Both data scientists and life scientists are invited to apply!
Application deadline: 31 March 2025

We are looking for 1-2 postdoctoral researchers and 1-2 research assistants (transition into a PhD possible!) in Computational Biology, Bioinformatics or Data Science. The research group is connected to SciLifeLab and is part of the National Program for Data-driven Life Science (DDLS).

The lab's research is focused on computational method development (statistical approaches and machine learning) for single-cell gene expression data (such as single-cell RNA-sequencing, spatial transcriptomics and in situ sequencing) to infer complex cell features. The two main projects aim to infer cellular lineage relationships and cellular micro-environments respectively. This in turn lays the basis for applications in precision medicine related to human biopsies and cancer heterogeneity.

The candidates will have the opportunity to individually drive the projects forward and develop their own line of research as well as to extent their skills at the intersection of mathematics, programming and biology.
https://www.scilifelab.se/researchers/marcel-tarbier/

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Requirements

PhD degree (for postdoc) or Master's degree (for research assistant) in computational biology, bioinformatics, biostatistics, data science, applied statistics, machine learning, biotechnology, molecular biology/medicine or equivalent or a foreign degree equivalent to a PhD degree / Master's degree. The degree needs to be obtained by the time of the decision of employment.

Skills at the intersection of mathematics, programming and biology are required. The applicant should have experience in two of these fields and an interest in learning about the remaining one.
The candidate is required to possess a strong command of R or python programming as well as experience in the development of original code for data analysis. Experience in statistics, handling of big datasets, data analysis and visualization is expected. Fluency in written and spoken English is necessary.

Additional qualifications

Any of the following skills is considered a merit.
· Experience with single-cell RNA-sequencing, spatial transcriptomics or in situ sequencing
· Experience in handling technical and other biases in the data and in handling complex data with interdependent features
· Experience with HPC, parallelization and handling of large datasets
· Experience in feature inference (e.g., inferring an unobserved external factor through its footprint in the data, i.e., transcription factor activity from RNA-sequencing data)
· Experience in multi-omics integration, machine learning or RNA pseudo-time and velocity analyses

About the employment

Postdoc: The employment is a temporary position of 2 years according to central collective agreement, with possibility of 1 year extension. Full time position. Starting date as agreed.

Research Assistant: The employment is a temporary position, 6 months with possibility of extension.  Full time position. Starting date as agreed.