What are the responsibilities and job description for the Associate Director - Computational Biology and Antibody Design position at Commonwealth Sciences, Inc.?
Responsibilities:
- Design and implement the computational platform architecture for antibody discovery, integrating ML/DL models, structural biology tools, and high-throughput screening data analysis into the pipeline
- Develop and deploy ML models for antibody-antigen binding prediction, affinity maturation, and developability assessment
- Develop state-of-the-art deep learning models for structure-based antibody design, antibody sequence design, antibody-antigen co-folding, and antibody-antigen binding prediction
- Lead the integration of AlphaFold, Rosetta Antibody/Rosetta Fold, Boltz-1, and other state-of-the-art protein structure prediction tools into the discovery pipeline
- Create and maintain computational workflows for analyzing large-scale screening data (phage display, yeast display, NGS data) to identify lead candidates
- Partner with teammates in Platform Engineering and Discovery to identify key challenges and design innovative, AI-driven solutions using in silico and in vitro validation results
- Implement structural modeling pipelines including homology modeling, molecular dynamics simulations, and protein-protein docking for antibody optimization
- Use expertise to influence the Founding and research team’s agenda while maintaining a high level of responsibility and accountability for work deliverables
- Stay current with advances in AI/ML for drug discovery and implement cutting-edge approaches
Requirements:
- PhD in Computational Biology, Bioinformatics, Computer Science, Physics, or related quantitative field with 5 years of industry experience in biologics/antibody discovery
- Proven expertise in machine learning and deep learning frameworks (PyTorch, TensorFlow, JAX) and state-of the-art AI algorithms applied to protein design and structure prediction
- Strong background in protein, molecular dynamics, and antibody-specific computational tools and databases (IMGT, AbNum, Chothia numbering, etc.)
- Skilled in high-throughput data analysis (NGS, display technologies) and structural biology software (PyMOL, Rosetta, MOE)
- Proficiency in Python, with experience in R, C , or Julia as a plus
Job Type: Contract
Pay: $80.00 - $110.00 per hour
Expected hours: 40 per week
Work Location: In person
Salary : $80 - $110
