De Novo Protein Design Validation Scientist

BioSpace; San Diego (CA); On-site; USD 168,000 - 268,000; Full time

Benefits offered by this job

401(k)

Pension

Vacation benefits

Medical, dental, vision

Flexible benefits

Life insurance

Job summary

Lilly’s BioTDR division in San Diego is expanding its computational capabilities to build a generative design platform for antibodies and biotherapeutics. You will join a cross-functional team applying AI/ML, protein engineering, automation, and structural biology to enhance design, evaluation, and learning cycles.

The role emphasizes rigorous data analysis, model evaluation, and collaboration with wet-lab scientists to translate results into improved designs and performance.

Qualifications

• Ph.D. in computational biology/biophysics/biochemical fields or related STEM discipline; or MS with 3+ years; or BS with 5+ years.
• Proficiency in Python and the scientific computing stack, version control, and reproducible analysis.
• Working knowledge of statistics, uncertainty quantification, regression, and experimental design.

Responsibilities

• Evaluation analyses: assemble held-out datasets, compare predictions with experiments, quantify uncertainty, identify patterns and failure modes.
• Biophysical calculations: run molecular simulations and evaluate stability, developability predictions with ML-enhanced methods.
• Data pipelines: build reproducible workflows preserving design, sample, assay, and metadata.
• Experimental partnership: plan data-generation studies with protein science and automation teams.
• Closed-loop learning: integrate outcomes into datasets and training-ready data products for design iterations.
• Scientific communication: present findings and uncertainties clearly to computational and experimental teams.

Skills

Python

Scientific computing stack

Version control

Reproducible analysis

Education

Ph.D. in computational biology/biophysics/ computational chemistry/ bioengineering/ chemical engineering/ physics/ statistics or related STEM

M.S. with 3+ years

B.S. with 5+ years

Tools

OpenMM

GROMACS

Amber

Rosetta

Schrödinger

Snakemake

Nextflow

Containers

GPU computing

Job description

Lilly’s BioTDR division in San Diego is expanding its computational capabilities to build a generative design platform for antibodies and biotherapeutics. You will join a cross-functional team applying AI/ML, protein engineering, automation, and structural biology to enhance design, evaluation, and learning cycles.

The role emphasizes rigorous data analysis, model evaluation, and collaboration with wet-lab scientists to translate results into improved designs and performance.