Remote Senior ML Scientist: Protein Engineering Research

A-Alpha Bio; Oregon; Hybrid; USD 164,000 - 206,000; Full time

Job summary

A-Alpha Bio is seeking a Senior Scientist, Machine Learning Research to turn large-scale protein interaction data into actionable insights and models for antibody and protein engineering. You will lead challenging AI/ML projects, including de novo design of antibodies, affinity prediction, and developability optimization, working with ML Scientists and wet-lab colleagues.

You will design experiments, mentor teammates, and communicate results to internal teams and external collaborators, while

Qualifications

• PhD or equivalent with 4+ years in software development and AI/ML; or Bachelor's with 12+ years in software development and AI/ML.
• Strong experience with modern DL frameworks (PyTorch, JAX) and architectures (VAEs, transformers, GNNs, diffusion).
• Experience with data wrangling, model training, cross-validation, and deployment at scale.
• Excellent verbal and written communication, able to explain methods to computational and experimental audiences.

Responsibilities

• Develop AI/ML methods for protein engineering and binding prediction.
• Design and implement novel AI/ML approaches using activity measurements, sequences, and structural data.
• Create benchmarks and evaluations to ensure defensible, reproducible results.
• Produce data packages, model executables, and technical reports for internal and external use.
• Contribute to shared codebase and documentation; review merges and improve data management.
• Propose innovative computational approaches and stay current with ML trends.
• Take technical leadership on projects and mentor colleagues; represent the company publicly.

Skills

Deep learning

PyTorch

JAX

Transformers

GNNs

Data wrangling

Model deployment

Scientific communication

Education

PhD in quantitative or life sciences

Bachelor's degree in quantitative or life sciences

Tools

AWS

Job description

A-Alpha Bio is seeking a Senior Scientist, Machine Learning Research to turn large-scale protein interaction data into actionable insights and models for antibody and protein engineering. You will lead challenging AI/ML projects, including de novo design of antibodies, affinity prediction, and developability optimization, working with ML Scientists and wet-lab colleagues.

You will design experiments, mentor teammates, and communicate results to internal teams and external collaborators, while