Microscopy Imaging Specialist

Join our innovative team at the Microscopy Core Facility Cellular Imaging, where we support a wide range of research projects of 500+ users through advanced microscopy and cutting-edge imaging techniques. We handle diverse imaging challenges, from processing large image datasets to managing high-throughput screens with thousands of images. Our integrated framework, powered by OMERO and our recently published BIOMERO, leverages high-performance computing (HPC) environments for efficient, automated image analysis.

We aim to expand our capabilities and enhance our framework by developing workflows that are Findable, Accessible, Interoperable, and Reusable (FAIR). These workflows will support various imaging analysis tasks and incorporate external tools, including large language models, to meet the evolving needs of our research community NL-BioImaging.

As an Imaging Specialist, you will:

• Work with diverse imaging types, with a focus on fluorescence imaging, handling both large-scale and high-throughput image sets;
• Design and refine diverse advanced image analysis workflows, deploying them in HPC environments;
• Collaborate with national (Nl-BioImaging) and international (Euro-BioImaging) partners to understand user needs and integrate existing external workflows into our system;
• Contribute to open and transparent science by making the image analysis workflows FAIR-compliant;
• Enhance and optimize our imaging framework to support new research applications and improve performance;
• Document, communicate and disseminate your work effectively, contributing to the general advancement of imaging technologies in research and clinical settings.

We are seeking a microscopy imaging specialist who possesses:

• A Master’s degree in a relevant field such as Computer Science, Bioinformatics, Biomedical Engineering, or similar;
• (Preferably) documented background in image analysis, with experience in handling large datasets or high-throughput imaging projects;
• Proficiency in Python and experience with GitHub and Docker;
• Familiarity with HPC environments and job management tools like SLURM;
• Ability to develop and extend applications, particularly within existing open-source frameworks;
• (Preferably) knowledge of image analysis software such as ImageJ, QuPath, CellProfiler, and MATLAB;
• Good communication skills, with the ability to engage with both technical and non-technical stakeholders (users of the microscopy core facility).

• A flying start to your career in scientific research.
• Plenty of room for your drive to shape tomorrow's healthcare.
• Working on large-scale and in-house research, with motivated colleagues from all over the world.
• A contract for 12 months (extension possible, subject to funding).
• Salary scale 10: € 3.493 to € 5.504 gross based on full-time employment (depending on education and experience) and a year-end bonus of 8.3%. Calculate your net salary here.
• Holiday hours: 186,4 per year for fulltime and a possibility to save additional hours.
• Pension accrual with BeFrank, a modern, comprehensible and fairly priced pension.
• Now still a (partial) reimbursement of your public transport travel costs. From 1 October, for >7 km each way, 100% public transport reimbursement and, for private transport, €0.18 per km up to a maximum of 40 km each way.
• Do you prefer walking or cycling? Take advantage of our good bike scheme. And from 1 October, you will receive a reimbursement of €0.18 per km.

Watch this video with more information about joining Amsterdam UMC Research BV.

This role offers a unique opportunity to contribute to groundbreaking research using advanced microscopy and to be at the forefront of technological innovation in biomedical science. If you are enthusiastic about image analysis and eager to take on relevant, exciting challenges, and work in a national bio-imaging data analysis team, we invite you to apply! For more information, please see: http://www.microscopy.nl.