ML Researcher at Axiom Bio

Job description

About Axiom Axiom is building the closed-loop scientific AI system required to replace animal testing and, over time, much of human safety testing. We start with pharma’s hardest drug development toxicology problems. Those problems define the proprietary human biological data we generate through Axiom’s Data Factory. We use that data to train scientific AI, partnering with leading AI labs to improve frontier models while building our own specialist agentic harness to deploy the improved frontier models back into pharma. Each deployment reveals the next capabilities to build, creating a compounding loop across data, models, and drug development. Today, liver toxicity is our proving ground. Axiom is already helping leading pharmaceutical companies understand toxicity, identify its mechanism, and design safer drugs. Over time, we will expand across the major organ systems and build the experimental and agentic system of record for translational drug development. Our goal is to dramatically reduce the risk of testing new molecules in humans, enabling high throughput evaluation of efficacy in humans. What you will do You will help define Axiom’s core ML research agenda and build the models that power our product. - Define end-to-end ML and agent systems spanning wet-lab data generation, data cleaning, feature extraction, representation learning, model training, evaluation, inference, deployment, and customer-facing outputs. - Build novel models that learn the relationship between chemistry, biological response, dose, exposure, and human toxicity. - Train large multimodal models on paired chemical structures, high-content cellular images, transcriptomics, proteomics, mass spectrometry, ADME, and clinical outcome data. - Develop foundation models and representation-learning systems for biological images, molecules, and multimodal experimental readouts. - Architect models that predict human toxicity as a function of dose, Cmax, in vitro potency, chemical structure, and biological state. - Develop new ways to aggregate, pool, align, and interpret embeddings across assays, doses, timepoints, modalities, compounds, and biological systems. - Work on contrastive learning, self-supervised learning, semi-supervised learning, multimodal learning, graph neural networks, biological image models, generative models, and mechanistic reasoning systems. - Build models that can generalize across chemical space, mechanisms, targets, assays, and customer programs. - Conduct rigorous error analysis to understand when models fail, why they fail, and what data would make them better. - Collaborate with computational biologists, chemists, mass spec scientists, data engineers, and wet-lab teams to design experiments that maximally improve model performance. - Help build Axiom’s mechanistic agents: systems that reason over experimental data, compare compounds to mechanistic neighbors, explain toxicity mechanisms, and guide scientific decisions. - Own the research-to-product loop: prototype, train, evaluate, ship, observe real usage, improve, and repeat. - Ship insanely great models and products to customers. RESEARCH AREAS WE ARE EXCITED ABOUT We are especially interested in people excited by: - Multimodal ML across chemistry, cellular imaging, transcriptomics, proteomics, mass spectrometry, ADME, and clinical outcomes. - Reasoning over massive amounts of multimodal experimental data, model outputs, literature, and mechanistic evidence. - Reinforcement learning for basic biology, chemistry, and advanced drug discovery. - Self-supervised and semi-supervised learning on high-content imaging and biological readouts. - Uncertainty estimation, calibration, and confidence for scientific decision-making. - Mechanistic interpretability for biological and chemical models. - Evaluation systems for models that must perform on real drug discovery problems, not toy benchmarks. What we are looking for We are looking for someone with exceptional ML talent, strong engineering ability, and the ambition to become a leader in AI for biology and drug discovery. You might be a great fit if: - You have done at least one piece of work, in industry, academia, open source, or independently, that shows exceptional machine learning ability. - You are deeply technical and comfortable writing PyTorch, debugging training runs, working with messy data, scaling inference, and building real systems. - You are excited by non-standard, thorny modeling problems where the data is noisy, multimodal, sparse, biased, biological, and deeply important. - You want to work on ML problems where better models can directly change scientific and clinical decisions. - You are not afraid of the data dirty work required to make models better. - You can move between research ideas and production systems. - You care about evaluation, calibration, failure modes, and real-world usefulness. - You are curious enough to learn biology, chemistry, toxicology, pharmacology, and drug discovery. - You want to grow as both a researcher and an entrepreneur. - You want your work to become a product that customers love and rely on. Technical skills we value We do not expect every candidate to have all of these, but we are especially excited by experience with: - PyTorch, JAX, TensorFlow, or other deep learning frameworks. - Python, NumPy, Pandas, Polars, PyArrow, scikit-learn, and scientific computing. - Training and evaluating deep neural networks at scale. - Representation learning, embeddings, contrastive learning, metric learning, and self-supervised learning. - Computer vision models, especially for biological imaging, microscopy, cell painting, or high-content screening. - Multimodal ML across images, molecules, text, omics, mass spec, or tabular data. - Large-scale model training, distributed training, GPU infrastructure, inference pipelines, and cloud compute. - Model evaluation, ablations, benchmarking, uncertainty estimation, calibration, and interpretability. - LLMs, agents, retrieval, tool use, and reasoning systems. - Biology, chemistry, toxicology, pharmacology, or drug discovery datasets.

Requirements

Must-haves

You will help define Axiom’s core ML research agenda and build the models that power our product.
Define end-to-end ML and agent systems spanning wet-lab data generation, data cleaning, feature extraction, representation learning, model training, evaluation, inference, deployment, and customer-facing outputs.
Build novel models that learn the relationship between chemistry, biological response, dose, exposure, and human toxicity.
Train large multimodal models on paired chemical structures, high-content cellular images, transcriptomics, proteomics, mass spectrometry, ADME, and clinical outcome data.
Develop foundation models and representation-learning systems for biological images, molecules, and multimodal experimental readouts.
Architect models that predict human toxicity as a function of dose, Cmax, in vitro potency, chemical structure, and biological state.
Develop new ways to aggregate, pool, align, and interpret embeddings across assays, doses, timepoints, modalities, compounds, and biological systems.
Work on contrastive learning, self-supervised learning, semi-supervised learning, multimodal learning, graph neural networks, biological image models, generative models, and mechanistic reasoning systems.
Build models that can generalize across chemical space, mechanisms, targets, assays, and customer programs.
Conduct rigorous error analysis to understand when models fail, why they fail, and what data would make them better.
Collaborate with computational biologists, chemists, mass spec scientists, data engineers, and wet-lab teams to design experiments that maximally improve model performance.
Help build Axiom’s mechanistic agents: systems that reason over experimental data, compare compounds to mechanistic neighbors, explain toxicity mechanisms, and guide scientific decisions.
Own the research-to-product loop: prototype, train, evaluate, ship, observe real usage, improve, and repeat.
Ship insanely great models and products to customers.
We are especially interested in people excited by:
Multimodal ML across chemistry, cellular imaging, transcriptomics, proteomics, mass spectrometry, ADME, and clinical outcomes.
Reasoning over massive amounts of multimodal experimental data, model outputs, literature, and mechanistic evidence.
Reinforcement learning for basic biology, chemistry, and advanced drug discovery.
Self-supervised and semi-supervised learning on high-content imaging and biological readouts.
Uncertainty estimation, calibration, and confidence for scientific decision-making.
Mechanistic interpretability for biological and chemical models.
Evaluation systems for models that must perform on real drug discovery problems, not toy benchmarks.
What we are looking for
We are looking for someone with exceptional ML talent, strong engineering ability, and the ambition to become a leader in AI for biology and drug discovery.

Nice-to-haves

None flagged.

Application prep

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Keywords to mirror

aimlmachine learningpython

Platform: ashby
Effort: quick

Benefits

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