Master's thesis in the field of bioinformatics - Deep learning for spatial transcriptomics
The Fraunhofer Institute for Cell Therapy and Immunology IZI researches and develops special problem solutions at the interfaces of medicine, life sciences and engineering. At Fraunhofer IZI, the Bioinformatics Unit is looking for a Master’s student to work on a thesis project at the Leipzig site. The group uses computer-aided methods combined with omic-wide and multi-modal analytical procedures to identify and validate new biomarkers and new therapeutic targets. The latest technological developments in molecular diagnostics make it possible to characterize (sub)cellular expression patterns in tissue with spatial resolution. These so-called spatial transcriptomics workflows are used in preclinical drug development, evolutionary biology and patient-oriented diagnostics. To optimize the experimental workflow, a machine learning model will be developed that supports the determination of workflow parameters.
What you will do
The topic of the master thesis is the training and validation of a neural network for the computer-aided prediction of essential parameters for the experimental design of spatial transcriptomics workflows. Using publicly available paired data sets on cell morphology and spatially resolved expression in tissue, a neural network will be trained to predict the most important workflow parameters. The generalization of the trained neural network will be tested on independent test data. In addition to the public data sets, proprietary data is also available at the Fraunhofer IZI for processing the task.
What you bring to the table
What you can expect
We value and promote the diversity of our employees' skills and therefore welcome all applications - regardless of age, gender, nationality, ethnic and social origin, religion, ideology, disability, sexual orientation and identity. Severely disabled persons are given preference in the event of equal suitability.
Interested? Apply online via our career portal now. We look forward to getting to know you!
We will be happy to answer any questions you may have about this position: Nicole Schulz Tel: +49 341 355363322
Fraunhofer Institute for Cell Therapy and Immunology IZI
Requisition Number: 76313 Application Deadline:
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