Senior Software Engineer, Genomics

The Center for Computational Biology (CCB) is seeking an experienced senior software engineer to join a growing team of developers within CCB and the other centers across the Flatiron Institute who help build and maintain HumanBase . HumanBase is a dynamic and interactive web-based platform that supports thousands of biomedical researchers in exploring the molecular mechanisms of human disease. This position is ideal for an experienced engineer with bioinformatics experience who thrives on solving complex problems at the intersection of large-scale data, pipeline building, advanced analytics, and scientific discovery. This is a high-impact role that directly advances the study of human genomics and disease. 

The successful candidate will collaborate closely with researchers at the Center for Computational Biology to translate cutting-edge computational biology research into scalable production systems and data pipelines that power HumanBase. This is a hands-on backend role for an experienced engineer with expertise in biological data, genomics, and -omics technologies. They will also have experience processing large-scale -omics datasets, maintaining production software systems, designing and optimizing data-intensive pipelines, and supporting machine learning workflows in scientific computing environments.  

This is a full-time position based in the Simons Foundation offices in New York City. Visit the Simons Foundation career page to learn more. 

 ESSENTIAL FUNCTIONS/RESPONSIBILITIES 

• Contribute to the design, architecture, and implementation of new HumanBase features and major infrastructure improvements 

• Translate research-stage computational methods into robust, maintainable, and reproducible production software and data pipelines 

• Design, develop, and optimize scalable genomics and biomedical data processing pipelines that ingest, normalize, and transform heterogeneous datasets 

• Integrate machine learning and statistical methods into production workflows for analysis of complex biological datasets 

• Apply software engineering best practices, including code review, testing, version control, documentation, CI/CD, and deployment automation 

• Collaborate closely with computational biologists, data scientists, and external partners to align engineering efforts with scientific and platform goals 

• Evaluate and adopt emerging technologies in bioinformatics, cloud infrastructure, and scientific computing where appropriate to improve platform capabilities and performance 

• Contribute to operational support, maintenance, and continuous improvement of production systems supporting HumanBase 

• Perform other duties or tasks as assigned or required