About the ELMI

ELMI was created in 2001 to establish a unique communication network between European scientists working in the field of light microscopy and the manufacturers of their equipment.

Bioimage Analyst, EMBL Heidelberg, Germany

Location:Heidelberg, Germany
Staff Category:Staff Member
Contract Duration:2 years (renewable)
Grading:4, 5 or 6; depending on qualifications and experience
Closing Date:7 February 2021
Reference Number:HD01904

The European Molecular Biology Laboratory (EMBL) is a world leader in scientific research in and at the forefront in the development of cutting-edge technologies. In order to support its research teams, EMBL has set up a number of core facilities which provide cutting-edge services to its scientists and visitors from its member states. The Centre for BioImage Analysis (CBA) collaborates closely with the Advanced Light Microscopy and the Electron Microscopy Facilities together with EMBL’s IT department to develop and provide solutions in advanced image and data analysis. Core facilities and CBA closely collaborate with Cellzome, a GSK company located on the EMBL campus in Heidelberg. The computational biology group at GSK is developing state-of-the-art analysis and data integration methods for disease tissue characterization using single-cell and spatial omics data. We are seeking a Bioimage Analyst supporting the CBA team in developing and establishing workflows and services for the analysis of spatial multi-omics data.

Your role

The successful candidate will work in the Advanced Light Microscopy Facility (ALMF) and CBA at EMBL. In this role, you will support and develop cutting-edge and user-friendly workflows for the analysis of spatial multi-omics data. The focus will be on the analysis of image-based transcriptomics data generated using in situ sequencing (ISS) technology, which allows RNA molecule detection at subcellular spatial resolution. You will work on data import, image registration, artifact removal, spot detection, and transcript identification. You will also be involved in the establishment of an interactive visualization platform enabling quality control and scientific discovery in spatial multi-omics data. Data generation has already begun and will continue in the future, through imaging of tissue sections from non-small-cell lung carcinoma (NSCLC) patients in collaboration with GSK Cellzome. The ultimate scientific aim is the detailed spatial characterization of the tumor microenvironment.

You have

As our ideal candidate, you will have a university degree in either life sciences, physics or engineering, preferably with a PhD. Experience in advanced light microscopy techniques, image analysis and image data handling is essential. Experience with one or more programming languages such as Python or Java is required. You should be a team player and have good communication and organisational skills. Fluency in English is compulsory.

For additional information please check the job offer.