RNA ML Engineer: AI & Bioinformatics for Therapeutics

ProQR Therapeutics NV; Leiden; Vor Ort; EUR 90.000 - 130.000; Vollzeit

Benefits dieser Stelle

Annual performance bonus

Stock options

premium-free pension plan

Commuting allowance

Unlimited healthy snacks and drinks

Employee events

Zusammenfassung

ProQR Therapeutics NV in Leiden, the Netherlands, seeks an experienced ML Engineer - AI & Bioinformatics to join our R&D team. You will build scalable ML pipelines, transform biology data into AI-ready datasets, and support both scientific modeling and automation of bioinformatics workflows.

You will work with lab scientists and bioinformaticians to ensure data-model alignment, contribute to data infrastructure, and apply machine learning to RNA therapeutics challenges.

Qualifikationen

• MSc in Computer Science, Data Science, or a related quantitative discipline.
• At least 2 years of relevant work experience in machine learning, Generative AI models, Deep learning, or data engineering.
• Strong proficiency in Python for data processing, scripting, and model development.
• Experience with JAX or PyTorch for training and evaluating machine learning models.
• Basic understanding of molecular biology and willingness to learn RNA editing concepts.
• Hands-on experience with Linux-based environments and command-line tools.
• Familiarity with Docker (preferred) or similar containerization tools.
• Knowledge of software engineering best practices, including version control (Git), modular code design, and documentation.
• Exposure to R for statistical workflows.
• Curiosity and adaptability to explore the best tools and approaches for each project.

Aufgaben

• Design editing oligonucleotide (EON) candidates using ML models in a lab-in-the-loop cycle.
• Develop, train, and evaluate AI models using JAX or PyTorch for biological prediction and design tasks.
• Adapt and fine-tune foundation models for downstream tasks; explore new architectures.
• Benchmark model performance across diverse biological tasks and contribute to model selection.
• Collaborate with wet-lab teams to plan design-test-learn rounds.
• Design, build, and maintain modular, reproducible data pipelines.
• Automate and optimize data flows using scripting and containerized tools like Docker.
• Collaborate cross-functionally with domain scientists and project leads.
• Contribute to data infrastructure initiatives, including FAIR schema development.
• Support statistical analyses and data exploration using Python and/or R.
• Ensure reproducibility through modular code design, Git, and thorough documentation.
• Engage in technical discussions and knowledge-sharing sessions.

Kenntnisse

MSc in Computer Science

2+ years ML experience

Python proficiency

JAX or PyTorch

Linux command line

Git/version control

R knowledge

Docker familiarity

Curiosity and adaptability

Ausbildung

MSc in Computer Science, Data Science, or related

Tools

JAX

PyTorch

Docker

Git

R

Jobbeschreibung

ProQR Therapeutics NV in Leiden, the Netherlands, seeks an experienced ML Engineer - AI & Bioinformatics to join our R&D team. You will build scalable ML pipelines, transform biology data into AI-ready datasets, and support both scientific modeling and automation of bioinformatics workflows.

You will work with lab scientists and bioinformaticians to ensure data-model alignment, contribute to data infrastructure, and apply machine learning to RNA therapeutics challenges.