AI/ML Scientist – Protein Foundation Models

Manifold Bio is seeking an AI/ML Scientist to join their team and advance the development of protein foundation models. The ideal candidate will have experience in training protein foundation models and a strong understanding of deep learning architectures and optimization techniques.

Requirements

• Advance the team's ongoing foundation model training efforts—pretraining, fine-tuning, and evaluating folding, docking, language, and generative design models on Manifold's proprietary experimental data
• Develop and scale training pipelines for distributed, multi-GPU and multi-node training runs
• Integrate foundation model outputs into mBER to improve binder design success rates and enable new design capabilities
• Design and execute ML experiments with clear hypotheses, rigorous evaluation frameworks, and systematic analysis
• Establish best practices for mixed-precision training, gradient checkpointing, and computational efficiency at scale

Benefits

• Generous Paid Time Off