Data Engineer

About Aqemia

Aqemia is a next-generation pharmatech reinventing drug discovery with quantum-inspired physics and generative AI.

Our mission: design innovative small-molecule drug candidates for dozens of critical diseases, faster and smarter, without relying on experimental data.

Unlike traditional approaches, Aqemia starts drug discovery purely in silico. By combining physics-based models with large language models trained on proprietary data, we identify promising molecules with high accuracy before synthesis.

We’ve already delivered multiple preclinical successes and secured strategic partnership. Our internal pipeline is growing fast, with several programs in in vivo optimization.

We’re a team of 65+ based in Paris and London, we bring together chemists, physicists, engineers, and machine learning experts to push the boundaries of what’s possible in early-stage drug discovery.

The Role

As an Intermediate Data Engineer in the Data Team, you will work closely with scientists, engineers, and drug discovery portfolio team members to operate and improve the data flows that underpin Aqemia’s research and discovery activities. You will handle compounds and experimental results, ensuring these datasets are correctly ingested, validated, modelled, and organised for reliable downstream use.

Your work strengthens the link between experimental results and computational discovery by ensuring high data quality and continuity across scientific datasets and systems. The role requires strong scientific literacy, a clear sense of data ownership, and a proactive approach to improving data structures, metadata, and the tools that scientists rely on.

Whatyou’ll do

• Operate and maintain pipelines for experimental and molecular datasets, including compound and assay results
• Ensure accurate and timely ingestion, validation, and organisation of experimental data into shared systems
• Design and maintain clear, well-structured data models that reflect scientific and operational needs
• Work directly with scientists and engineers to capture requirements accurately and translate them into data solutions
• Contribute to data presentation, observability and visualization, making results accessible and interpretable for non-technical stakeholders
• Contribute to the evolution of tools, processes, and workflows for managing scientific and metadata assets
• Document datasets and pipelines clearly, enabling knowledge sharing across teams
• Participate actively in collaborative problem-solving, sprint planning, and cross-team discussions

What we’re looking for

• 2–4 years of experience in data engineering, ideally with exposure to scientific, pharmaceutical, or techbio domains
• Strong programming skills in Python and SQL
• Experience with data pipelines, dataset integration, and cloud-based data environments (AWS and Snowflake preferred)
• Exposure to data presentation or visualisation tools and techniques
• Experience with chemical, or biological datasets, or knowledge of the drug discovery process
• Excellent collaboration and communication skills, with proven ability to capture requirements and deliver solutions in multi-disciplinary teams

Preferred mindset

• You thrive in collaborative environments and value clear, precise communication
• You are curious about scientific data and motivated to understand research workflows
• You take pride in building data solutions that are trusted, interpretable, and directly empower discovery
• You care about accuracy, maintainability, and ensuring the needs of stakeholders are fully understood and addressed

Why Join Us

At Aqemia, engineers don’t just build software, they help discover real drugs. You’ll work at the intersection of AI, physics and chemistry, transforming bold scientific ideas into robust, production-grade tools that accelerate discovery.

DeepTech Mission

Build the platform that powers AI-driven drug discovery, combining quantum-inspired physics with generative models.

Real-World Impact

Every feature shipped helps scientists prioritize molecules and design better candidates, faster.

Modern Stack & Challenges

Python, FastAPI, Airflow, Snowflake, Kubernetes, ML workflows, scientific infra, data engineering at scale.

High Ownership, High Impact

Engineers contribute to architecture, tooling, and scientific decision-making.

Interdisciplinary Team

Collaborate with chemists, physicists, ML researchers, and product teams.

Prime Locations

Central Paris or London offices, with 2 remote days/week.

Strategic Traction

Backed by $100M in funding and a $140M partnership with Sanofi.

Join us if you’re excited to shape the future of AI-driven drug discovery, and want your code to change the course of real diseases.