Applied AI Research Scientist

Aqemia; Paris; Híbrido; EUR 90.000 - 130.000; Jornada completa

Ventajas ofrecidas por este puesto de trabajo

Paris & London offices

Up to 2 remote days per week

Strong funding ($100M)

Descripción de la vacante

AQEMIA is seeking an Applied AI Research Scientist to join the Drug Discovery Platform, dividing time between AI research and applied ML for discovery programs. You will design deep learning models (GNNs, generative, physics-informed) and build ML solutions that guide compound prioritization alongside chemists and biologists.

Based in Paris or London with up to two remote days per week, you’ll collaborate across multidisciplinary teams in a fast-growing company backed with strong funding.

Formación

• MSc or PhD in Computer Science, ML, Computational Chemistry, or related field.
• Strong problem-solving skills, autonomy and collaborative mindset.
• ~3-5 years of experience applying ML in scientific or industrial settings.
• Strong experience with ML frameworks (PyTorch, TensorFlow, Scikit-learn).
• Solid Python programming skills and experience with scientific computing libraries.

Responsabilidades

• Design and implement novel Deep Learning algorithms (GNNs, generative, physics-based models).
• Take part in cutting-edge research and bibliographic exploration.
• Collaborate with research and drug discovery teams to translate models into actionable insights.

Conocimientos

ML experience

Python

PyTorch

TensorFlow

Scikit-learn

Computational chemistry

Team collaboration

Educación

MSc/PhD in CS/ML/CompChem

Herramientas

PyTorch

TensorFlow

Scikit-learn

Descripción del empleo

About AQEMIA

AQEMIA is a drug invention company dedicated to creating entirely new medicines to address major unmet medical needs.At the core of our mission isQEMI, our proprietary molecule-invention platform, which uniquely combines cutting-edge science with advanced technology. Powered by physics-based modeling, statistical mechanics, and generative AI, QEMI allows our teams to design novel drug candidates from first principles.

What makes AQEMIA different is our commitment to true innovation: our research is dedicated to the invention of new molecular entities, not the refinement of existing ones. We focus on inventingnever-before-seen molecules, without relying on experimental data, and advancing them into a growing pipeline of proprietary programs and strategic partnerships with leading pharmaceutical companies.

Our most advanced preclinical programs are currentlyin vivo optimization, targeting diseases still waiting for effective treatments, offering our teams the opportunity to work on science that can make a real difference in people’s lives.

For more information, visit AQEMIA.com, our WTTJ Page, and our LinkedIn.

About our Team

AQEMIA brings together a diverse, multidisciplinary team of 80+ professionals based in Paris and London. Our scientists and engineers, including chemists, physicists, machine learning experts, and software engineers, work side by side to push the boundaries of early-stage drug discovery.

This close collaboration across disciplines is central to our approach, enabling us to tackle complex scientific challenges from first principles and translate cutting-edge ideas into novel therapeutic candidates. At AQEMIA, team members are encouraged to contribute their expertise, learn from one another, and play an active role in shaping the future of drug invention.

About our Platform Department

The Platform team (~20 people) brings together multidisciplinary teams working on the scientific core of Aqemia’s drug discovery engine. Its mission is to build scalable and reproducible workflows enabling multiple drug discovery programs to run in parallel with minimal manual intervention.

The team combines expertise across Artificial Intelligence and Machine Learning (both research and applications), data science, statistical physics and molecular simulations, computational chemistry (CADD), and other scientific disciplines. Together, they develop predictive models, physics-based simulations, and robust scientific pipelines that power AQEMIA's discovery platform.

At the center of this ecosystem is the “Rocket Launcher” process: an industrialized workflow continuously launching, testing, and improving drug discovery projects through iterative scientific feedback loops.

The role

We are looking for an Applied AI Research Scientist to join Aqemia’s Drug Discovery Platform, working at the intersection of ML and molecular science. You’ll split your time between:

• 50% AI Research: Develop cutting-edge ML models (e.g., GNNs, generative models, physics-informed AI) to predict molecular properties and protein‑ligand interactions.
• 50% Applied AI: Build ML models that drive real decisions in our internal and partnered drug discovery programs, working hand in hand with chemists, biologists and project leads.

Responsibilities

AI Research & Development (50%)

• Design and implement novel Deep Learning algorithms (GNNs, generative, physics-based models).
• Take part in cutting-edge research and bibliographic exploration
• Collaborate with research and drug discovery teams to translate models into actionable insights.

Applied ML for Discovery Programs (50%)

• Develop robust ML models (regression, ranking) from molecular and biological data.
• Collaborate with chemists and biologists; deliver results that drive compound prioritization.
• Own ML workstreams from start to finish: goals, timelines and stakeholder communication.
• Deliver models and predictions that scientists can use in their everyday workflows.

Qualifications

• MSc or PhD in Computer Science, Machine Learning, Computational Chemistry, or related field.
• Strong problem-solving skills, autonomy and a collaborative mindset.
• ~3-5 years of experience applying ML in scientific or industrial settings.
• Strong experience with ML frameworks (e.g., PyTorch, TensorFlow, Scikit-learn).
• Solid Python programming skills and experience working with scientific computing libraries.

Nice‑to‑Have

• Experience in drug discovery, computational chemistry, or physics.
• Experience with generative models (e.g., diffusion models, VAEs, autoregressive models) applied to structured data.
• Familiarity with structure-based drug design and protein‑ligand interactions.
• Familiarity with high-performance computing (HPC) and cloud-based ML pipelines.

Why Join Us?

At AQEMIA, we work for a mission: joining us means having your own impact on changing the way drugs are discovered, and helping to shape the direction of our fast-growing company and team.

Expanding Drug Discovery Pipeline: Focused on critical therapeutic areas like Oncology, CNS, Immuno-inflammation... with in vivo proof of concept/patent stage programs. Collaborations with top Pharma, including a $140M Sanofi deal.

World-Class Interdisciplinary Team: work alongside exceptional talent at the intersection of technology and life sciences. Our teams combine deep expertise in AI, physics-based modeling, biology, and medicinal chemistry to push the boundaries of innovation.

DeepTech Recognition: AQEMIA is proud to be part of theFrench Tech 40andFrance 2030, highlighting our role as a key player in Europe’s DeepTech ecosystem.

Prime Location with Flexibility: Our offices are located in the heart ofParisandLondon (King’s Cross), with flexible work arrangements including up to two remote days per week.

Strong Financial Backing: $100M raised from leading European and International investors