Eli Lilly and Company · 1 month ago
Statistical Genetics Platform Engineer
US, Indianapolis IN
Full-time
Onsite
Senior Level
$166K/yr - $266K/yr
6+ years expEli Lilly and Company is a global healthcare leader headquartered in Indianapolis, Indiana, focused on discovering and developing life-changing medicines. The Statistical Genetics Platform Engineer will enable statistical geneticists to derive insights from human genetic data, collaborating with various teams to drive data-driven decision-making and develop robust computational pipelines.
BiotechnologyHealth CareMedicalPharmaceutical
Responsibilities
Design and implement robust, scalable computational pipelines for statistical genetics analyses, including workflows for GWAS, polygenic risk scores, fine-mapping, colocalization and variant annotation
Develop and maintain platform tools and APIs that enable researchers to efficiently process genomic data at scale (biobanks, population cohorts, multi-omics datasets)
Build infrastructure for reproducible research, including containerization, workflow orchestration, and version control for analytical pipelines
Optimize computational performance of statistical genetics algorithms and implement distributed computing solutions for large-scale analyses
Collaborate with statistical geneticists and computational biologists to translate methodological innovations into production-ready software
Establish best practices for data access, quality control, validation, and documentation across genomic analysis pipelines
Maintain and improve existing codebases, ensuring code quality, testing coverage, and comprehensive documentation
Monitor platform performance, solve issues, and implement improvements based on user feedback and evolving research needs
Support the integration of AI-based tools and required MLOps infrastructure
Qualification
Required
Master's in Computer Science, Statistical Genetics, Bioinformatics or related field and 6+ years post-Master's experience (in industry or large-scale non-academic institutions, e.g. Broad, NIH)
OR PhD in Computer Science, Statistical Genetics, Bioinformatics or related field and 3+ years post-PhD experience (in industry or large-scale non-academic institutions, e.g. Broad, NIH)
Strong programming skills in languages commonly used in genomics research (Python, R)
Demonstrable understanding of statistical genetics concepts including GWAS, heritability estimation, genetic correlation, rare variant analysis, and population structure
Experience using standard tools and formats for genetic data (VCF, BGEN, PLINK, BAM/CRAM) and genomic databases
Proficiency with workflow management systems (Nextflow, Cromwell/WDL) and containerization technologies
Experience with high-performance computing environments, cloud platforms (AWS, GCP, Azure), or distributed computing frameworks
Strong problem-solving abilities and attention to detail in handling complex biological datasets
Ability to prioritize and manage multiple competing priorities within a fast-paced environment
Preferred
Demonstrated track record performing end-to-end analysis of human genetic data
Experience performing complex analyses in cloud-based environments required; prior experience with DNANexus and/or DataBricks is preferred
Experience with large-scale biobanks and their trusted research environments is preferred
Experience of querying data for analysis through SQL (e.g. PostgreSQL), noSQL (e.g. Elasticsearch), data stores (e.g. hail), graph databases (e.g. neo4j) and file storage (e.g. S3)
Experience working with additional data formats, including RNA-seq, metabolomic, and proteomic data
Experience with protein language models and/or sequence language models
Experience working with clinical data
Experience working with electronic health record data
Knowledge of AdAM and OMOP formats
Strongly team-oriented with a customer focused design thinking approach
Knowledge of drug development process and how genomics data is used to impact these areas
Benefits
Company bonus (depending, in part, on company and individual performance)
Eligibility to participate in a company-sponsored 401(k)
Pension
Vacation benefits
Eligibility for medical, dental, vision and prescription drug benefits
Flexible benefits (e.g., healthcare and/or dependent day care flexible spending accounts)
Life insurance and death benefits
Certain time off and leave of absence benefits
Well-being benefits (e.g., employee assistance program, fitness benefits, and employee clubs and activities)
Company
Eli Lilly and Company
We're a medicine company turning science into healing to make life better for people around the world.
10001+ employees
H1B Sponsorship
Eli Lilly and Company has a track record of offering H1B sponsorships. Please note that this does not
guarantee sponsorship for this specific role. Below presents additional info for your
reference. (Data Powered by US Department of Labor)
Distribution of Different Job Fields Receiving Sponsorship
Represents job field similar to this job
Trends of Total Sponsorships
2025 (514)
2024 (236)
2023 (167)
2022 (133)
2021 (57)
2020 (52)
Funding
Current Stage
Public CompanyTotal Funding
$6.5M2024-02-12Post Ipo Debt· $6.5M
1978-01-13IPO
Leadership Team
David Ricks
Chair, CEO
Lucas Montarce
Executive Vice President and Chief Financial Officer
Recent News
2026-01-17
2026-01-17
Company data provided by crunchbase