🚀 ML Engineer – Protein Design | Kgs. Lyngby, Greater Copenhagen Area

AffinityAI is seeking an ML Engineer in protein design to join our growing team.

Company Description

AffinityAI specialises in the design of advanced protein binders for applications in research, diagnostics, and drug development. Based in Kgs. Lyngby, Denmark, we tackle complex biological challenges through cutting-edge protein design. By combining AI-driven design with efficient laboratory validation, AffinityAI enables partners to accelerate biologics discovery with greater precision and control over key molecular properties.

Role Description

This is a full-time, on-site role for a Machine Learning Engineer, located in Kgs. Lyngby in the Greater Copenhagen Area. The Machine Learning Engineer will develop, implement, and refine machine learning models for protein binder design. The role also includes collaborating closely with protein engineers and experimental scientists to translate wet lab results and biologics development objectives into ML design capabilities. Additionally, the ML Engineer should stay updated on emerging technologies and advancements in machine learning to keep the company’s tools and methodologies cutting-edge.

What we’re looking for

We are particularly interested in candidates with experience in one or more of the following areas:

• Machine learning applied to biological data
• Training and developing generative models
• Building scalable ML pipelines and infrastructure
• Protein design: Experience with structural generative protein design models is a strong plus. Familiarity with molecular modelling tools such as Rosetta is also beneficial
• A solid understanding of protein biochemistry, including structure, function, and interactions

The more of the above mentioned areas you have experience in, the better.

Minimum requirements for applying:

• Strong experience with deep learning model development and training
• A basic understanding of proteins

Who you are

Just as importantly, we’re looking for someone who:

• Enjoys solving challenging scientific problems
• Thrives in a fast-paced startup research environment, where priorities may evolve
• Collaborates effectively across computational and experimental teams
• Is motivated to help shape the future of biologics discovery

📍 Practical details

• Location: Kgs. Lyngby, Greater Copenhagen Area
• Work setup: On-site
• Eligibility: Applicants must already have the right to work in the EU

📩 How to apply

If this sounds interesting, we would love to hear from you.

Send your CV (PDF format) to careers@affinityai.dk. If you wish to include additional materials, please combine them into a single PDF and submit only one attachment.

By applying, you consent to the processing of your application data, including the use of automated tools