Applied AI Engineer, Clinical Informatics
Eli Lilly and Company1 day ago
Boston, MA, USASenior
Base Salary
$167k - $266k/yr
Responsibilities
- Develop and deploy agentic AI applications for natural-language interaction with clinical data.
- Build RAG pipelines grounded in biomedical ontologies, clinical trial registries, and curated pathway databases.
- Apply unsupervised, self-supervised, survival modeling, dynamic treatment regime, causal inference, NLP, and deep learning methods to clinical, trial, biobank, and omics data.
- Build pipelines for locked clinical trial databases using SDTM and ADaM for secondary and exploratory research.
- Identify subgroup effects, treatment heterogeneity, responder and non-responder signatures, latent safety signals, disease trajectories, and treatment response kinetics.
- Architect meta-analytic and cross-trial workflows and connect trial-derived findings with large-scale biobank cohorts for validation and enrichment.
- Evaluate and monitor model performance, safety, and reliability in production environments.
- Establish reproducible research data management practices including data versioning, containerized compute, and audit-ready analysis logs.
- Ensure research activities comply with HIPAA, GDPR, IRB, and ethics committee requirements.
- Manage vendors, contractors, and partnerships with relevant Lilly teams.
Requirements
- M.S. in Biomedical Informatics, Computational Biology, Bioinformatics, Statistical Genetics, Epidemiology, Computer Science, or a closely related quantitative field, with 6+ years of relevant research experience; alternatively, a Ph.D. or MD/PhD in a related field with 3+ years of relevant research experience.
- Research experience with clinical trial datasets, including SDTM and ADaM, biobank data, or large-scale population health data.
- Expert proficiency in Python and/or R for statistical modeling and machine learning, plus strong SQL skills.
- Experience with cloud-based research computing environments, high-performance computing, and production AI tools for clinical data analysis.
- Knowledge of generative AI, LLM fine-tuning, foundation model training, clinical data standards, OMOP CDM, HL7 FHIR Genomics, and biomedical ontologies.
- Experience applying survival analysis, causal inference, NLP, deep learning, federated learning, differential privacy, or secure computation to clinical or genomic research.
- Direct experience with major biobank resources such as UK Biobank and All of Us.
- Experience with target trial frameworks, pharmacogenomics, drug response modeling, PK/PD analysis, knowledge graphs, graph ML, ontology-driven reasoning, and multi-omic data analysis.
- Peer-reviewed publications in clinical AI, translational informatics, genomics, or a related area.
Benefits
- Full-time employees are eligible for a company bonus based partly on company and individual performance.
- Benefits include a 401(k), pension, vacation, medical, dental, vision, prescription drug, flexible spending, life insurance, leave, well-being, fitness, employee assistance, and employee club benefits.
- The anticipated base compensation is $166,500-$266,200.
- The position is full-time; compensation depends on education, experience, skills, and geographic location.
Tech Stack
Categories
About Eli Lilly and Company
Eli Lilly and Company researches, develops, manufactures, and markets prescription medicines and biologics for patients, sold through healthcare providers, pharmacies, and payers. Core therapeutic areas include diabetes, oncology, immunology, neuroscience, and obesity. Founded in 1876 and headquartered in Indianapolis, it is a public company (NYSE: LLY) with global operations and is building a new advanced manufacturing site for gene therapy and other modalities in Lebanon, Indiana.