{"schemaVersion":"jobsearcher.job.v1","id":"1827bfa210aa1fb23a3cac25","url":"https://jobsearcher.com/jobs/1827bfa210aa1fb23a3cac25","canonicalUrl":"https://jobsearcher.com/jobs/1827bfa210aa1fb23a3cac25","title":"Bioinformatics Platform Engineer","description":"Overview At Lilly, we unite caring with discovery to make life better for people around the world. We are a global healthcare leader headquartered in Indianapolis, Indiana. Our employees work to discover and bring life-changing medicines to those who need them, improve the understanding and management of disease, and give back to our communities through philanthropy and volunteerism. We put people first and seek colleagues determined to make life better for people around the world.\r\nLocation: San Francisco, CA | Indianapolis, IN | Boston, MA | San Diego, CA | New York, NY\r\nAbout the Role We are seeking a Bioinformatics Platform Engineer to join our Bioinformatics and Cloud Platform team. This is a highly hands-on role focused on operating, improving, and scaling the scientific computing infrastructure that powers production bioinformatics workflows.\r\nYou will work at the intersection of bioinformatics, cloud infrastructure, and platform engineering, helping scientists run complex next-generation sequencing (NGS) workflows reliably and at scale in AWS.\r\nYou will ramp up on our platform while actively contributing to its operation and improvement. As you gain familiarity, you will take on increasingly complex challenges — including solution architecting to support new bioinformatics workflows and enhancing platform capabilities.\r\nThis role spans multiple layers of the platform, from infrastructure to bioinformatics workflows, and is well-suited for engineers who enjoy working across system boundaries. You'll collaborate closely with scientists and engineers, contributing wherever needed to keep the platform running smoothly and evolving.\r\nOver time, you will develop deep expertise in the platform, take ownership of key infrastructure components, and help shape the long-term architecture of our scientific computing environment.\r\nWhat You'll Do Operate and improve our cloud platform that runs production NGS and bioinformatics workflows\r\nSupport and troubleshoot scientific workflow pipelines (Nextflow preferred)\r\nOperate and debug Linux-based production environments\r\nInvestigate and resolve complex issues across the entire platform stack, including workflow orchestration, cloud compute and storage, networking and security, IAM, and application services\r\nPartner with scientists to translate workflow needs into scalable, secure platform solutions\r\nContribute to infrastructure automation and platform reliability improvements\r\nIntegrate and operate multiple research and enterprise platforms\r\nApply cloud security and operational best practices\r\nParticipate in technical roadmap discussions and platform architecture decisions\r\nRequired Qualifications MS in Science, Engineering, Bioinformatics, Computational Biology, or related field\r\n3 years of experience working in pharma, biotech, or life sciences\r\nQualified applicants must be authorized to work in the United States on a full-time basis. Lilly will not provide support for or sponsor work authorization or visas for this role, including but not limited to F-1 CPT, F-1 OPT, F-1 STEM OPT, J-1, H-1B, TN, O-1, E-3, H-1B1, or L-1.\r\nPreferred Qualifications Hands-on experience working with NGS and bioinformatics workflows languages (Nextflow, Snakemake)\r\nStrong Linux systems expertise\r\nStrong AWS experience, including IAM, EC2, S3, networking fundamentals\r\nExperience integrating systems across cloud and enterprise environments\r\nDemonstrated ability to debug complex systems spanning multiple technologies\r\nAbility to work independently and take ownership of problems\r\nDemonstrated ability to learn new technologies quickly and work across unfamiliar systems\r\nExperience with orchestrating and scaling scientific or data workflows in cloud or on-prem environments\r\nExperience with infrastructure as code or automation tools to manage compute, storage, and networking resources\r\nFamiliarity with data engineering, distributed compute, or high-throughput analysis platforms\r\nExperience supporting collaborative data science or research environments\r\nExposure to CI/CD pipelines and modern DevOps practices (Jenkins, GitHub Actions)\r\nExperience developing or implementing testing frameworks for pipelines, workflows, or infrastructure\r\nExperience integrating with enterprise platforms, internal tools, or regulated systems\r\nComfortable learning new tools and platforms quickly, adapting to changing environments, and working across multiple technologies\r\nWhat Success Looks Like Within the first year you will\r\nGain a deep understanding of our scientific computing environment\r\nBecome a trusted technical partner to scientists and engineers\r\nIndependently support and troubleshoot production bioinformatics workflows\r\nTake ownership of key platform components\r\nContribute meaningfully to architecture discussions and long-term platform direction\r\nCultural Fit We value engineers who are\r\nCollaborative and easy to work with\r\nComfortable navigating technical disagreement constructively\r\nCalm under pressure and solutions-oriented\r\nComfortable working across disciplines and stepping in wherever the team needs help\r\nSelf-driven and accountable\r\nInvested in team success and shared learning\r\nLilly is dedicated to helping individuals with disabilities to actively engage in the workforce, ensuring equal opportunities when vying for positions. If you require accommodation to submit a resume for a position at Lilly, please complete the accommodation request form ( https://careers.lilly.com/us/en/workplace-accommodation ) for further assistance. Please note this is for individuals to request an accommodation as part of the application process and any other correspondence will not receive a response.\r\nLilly is proud to be an EEO Employer and does not discriminate on the basis of age, race, color, religion, gender identity, sex, gender expression, sexual orientation, genetic information, ancestry, national origin, protected veteran status, disability, or any other legally protected status.\r\nJ-18808-Ljbffr","company":"Eli Lilly","rawCompany":"eli lilly","city":"Millbrae","state":"CA","isRemote":false,"isActive":false,"createdAt":"2026-06-19T01:06:54.121Z","occupations":[{"code":"15-1299.08","title":"Computer Systems Engineers/Architects","slug":"computer-systems-engineers-architects"},{"code":"15-1252.00","title":"Software Developers","slug":"software-developers"},{"code":"19-1029.01","title":"Bioinformatics Scientists","slug":"bioinformatics-scientists"}],"industries":[{"code":"541714","title":"Research and Development in Biotechnology (except Nanobiotechnology)","slug":"research-and-development-in-biotechnology-except-nanobiotechnology"},{"code":"518210","title":"Computing Infrastructure Providers, Data Processing, Web Hosting, and Related Services","slug":"computing-infrastructure-providers-data-processing-web-hosting-and-related-services"},{"code":"541512","title":"Computer Systems Design Services","slug":"computer-systems-design-services"}],"jobPosting":{"@context":"https://schema.org","@type":"JobPosting","title":"Bioinformatics Platform Engineer","description":"Overview At Lilly, we unite caring with discovery to make life better for people around the world. We are a global healthcare leader headquartered in Indianapolis, Indiana. Our employees work to discover and bring life-changing medicines to those who need them, improve the understanding and management of disease, and give back to our communities through philanthropy and volunteerism. We put people first and seek colleagues determined to make life better for people around the world.\r\nLocation: San Francisco, CA | Indianapolis, IN | Boston, MA | San Diego, CA | New York, NY\r\nAbout the Role We are seeking a Bioinformatics Platform Engineer to join our Bioinformatics and Cloud Platform team. This is a highly hands-on role focused on operating, improving, and scaling the scientific computing infrastructure that powers production bioinformatics workflows.\r\nYou will work at the intersection of bioinformatics, cloud infrastructure, and platform engineering, helping scientists run complex next-generation sequencing (NGS) workflows reliably and at scale in AWS.\r\nYou will ramp up on our platform while actively contributing to its operation and improvement. As you gain familiarity, you will take on increasingly complex challenges — including solution architecting to support new bioinformatics workflows and enhancing platform capabilities.\r\nThis role spans multiple layers of the platform, from infrastructure to bioinformatics workflows, and is well-suited for engineers who enjoy working across system boundaries. You'll collaborate closely with scientists and engineers, contributing wherever needed to keep the platform running smoothly and evolving.\r\nOver time, you will develop deep expertise in the platform, take ownership of key infrastructure components, and help shape the long-term architecture of our scientific computing environment.\r\nWhat You'll Do Operate and improve our cloud platform that runs production NGS and bioinformatics workflows\r\nSupport and troubleshoot scientific workflow pipelines (Nextflow preferred)\r\nOperate and debug Linux-based production environments\r\nInvestigate and resolve complex issues across the entire platform stack, including workflow orchestration, cloud compute and storage, networking and security, IAM, and application services\r\nPartner with scientists to translate workflow needs into scalable, secure platform solutions\r\nContribute to infrastructure automation and platform reliability improvements\r\nIntegrate and operate multiple research and enterprise platforms\r\nApply cloud security and operational best practices\r\nParticipate in technical roadmap discussions and platform architecture decisions\r\nRequired Qualifications MS in Science, Engineering, Bioinformatics, Computational Biology, or related field\r\n3 years of experience working in pharma, biotech, or life sciences\r\nQualified applicants must be authorized to work in the United States on a full-time basis. Lilly will not provide support for or sponsor work authorization or visas for this role, including but not limited to F-1 CPT, F-1 OPT, F-1 STEM OPT, J-1, H-1B, TN, O-1, E-3, H-1B1, or L-1.\r\nPreferred Qualifications Hands-on experience working with NGS and bioinformatics workflows languages (Nextflow, Snakemake)\r\nStrong Linux systems expertise\r\nStrong AWS experience, including IAM, EC2, S3, networking fundamentals\r\nExperience integrating systems across cloud and enterprise environments\r\nDemonstrated ability to debug complex systems spanning multiple technologies\r\nAbility to work independently and take ownership of problems\r\nDemonstrated ability to learn new technologies quickly and work across unfamiliar systems\r\nExperience with orchestrating and scaling scientific or data workflows in cloud or on-prem environments\r\nExperience with infrastructure as code or automation tools to manage compute, storage, and networking resources\r\nFamiliarity with data engineering, distributed compute, or high-throughput analysis platforms\r\nExperience supporting collaborative data science or research environments\r\nExposure to CI/CD pipelines and modern DevOps practices (Jenkins, GitHub Actions)\r\nExperience developing or implementing testing frameworks for pipelines, workflows, or infrastructure\r\nExperience integrating with enterprise platforms, internal tools, or regulated systems\r\nComfortable learning new tools and platforms quickly, adapting to changing environments, and working across multiple technologies\r\nWhat Success Looks Like Within the first year you will\r\nGain a deep understanding of our scientific computing environment\r\nBecome a trusted technical partner to scientists and engineers\r\nIndependently support and troubleshoot production bioinformatics workflows\r\nTake ownership of key platform components\r\nContribute meaningfully to architecture discussions and long-term platform direction\r\nCultural Fit We value engineers who are\r\nCollaborative and easy to work with\r\nComfortable navigating technical disagreement constructively\r\nCalm under pressure and solutions-oriented\r\nComfortable working across disciplines and stepping in wherever the team needs help\r\nSelf-driven and accountable\r\nInvested in team success and shared learning\r\nLilly is dedicated to helping individuals with disabilities to actively engage in the workforce, ensuring equal opportunities when vying for positions. If you require accommodation to submit a resume for a position at Lilly, please complete the accommodation request form ( https://careers.lilly.com/us/en/workplace-accommodation ) for further assistance. Please note this is for individuals to request an accommodation as part of the application process and any other correspondence will not receive a response.\r\nLilly is proud to be an EEO Employer and does not discriminate on the basis of age, race, color, religion, gender identity, sex, gender expression, sexual orientation, genetic information, ancestry, national origin, protected veteran status, disability, or any other legally protected status.\r\nJ-18808-Ljbffr","datePosted":"2026-06-19T01:06:54.121Z","dateModified":"2026-06-19T01:06:54.121Z","hiringOrganization":{"@type":"Organization","name":"Eli Lilly","sameAs":"https://jobsearcher.com"},"jobLocation":{"@type":"Place","address":{"@type":"PostalAddress","addressLocality":"Millbrae","addressRegion":"CA","addressCountry":"US"}},"identifier":{"@type":"PropertyValue","name":"JobSearcher","value":"1827bfa210aa1fb23a3cac25"},"url":"https://jobsearcher.com/jobs/1827bfa210aa1fb23a3cac25"}}