Senior Software Engineer II

Essential Duties and Responsibilities

• Lead cross-functional projects from requirements clarification and scope definition through release and production support; manage technical and operational tradeoffs, dependencies, and delivery planning.
• Design, develop, test, deploy, document, and maintain production-quality software, integrations, APIs, data-processing services, and operational tooling.
• Build and improve the software that supports genomic testing from sample accessioning through laboratory and sequencing workflows, computational analysis, clinical reporting, and secure genomic-data exchange; work directly with the teams who rely on these systems each day.
• Work with scientific, clinical, and operational stakeholders to clarify needs, define requirements, and write specifications; translate them into clear technical designs, implementation plans, and maintainable software solutions.
• Contribute to product requirements and technical direction, and improve recurring workflows and practices across related products and systems.
• Partner with Computational Biology, Clinical Bioinformatics, Sequencing Operations, Project Management, Research Computing, and other stakeholders to deliver reliable, responsive services.
• Apply sound engineering practices, including version control, code review, automated testing, release management, documentation, observability, data protection, and secure handling of sensitive information.
• Analyze technical and operational challenges across related products and systems; incorporate appropriate expertise, evaluate alternatives, and propose practical, cost-effective solutions.
• Mentor engineers through design discussions, code reviews, and knowledge sharing; help teammates resolve difficult technical decisions, strengthen shared practices, and deliver reliable work.
• Communicate progress, risks, decisions, and delivery expectations clearly; seek relevant expertise and contribute constructively to collective outcomes.
• Use approved AI-enabled tools, where appropriate, to support software development, testing, documentation, and troubleshooting. Validate outputs for accuracy, security, privacy, and compliance with NYGC policies before relying on them.

Minimum Qualifications

• Bachelor’s degree in Computer Science with 9+ years of relevant software engineering experience, or a Master’s degree in Computer Science with 7+ years of relevant software engineering experience.
• Demonstrated ability to lead multi-stakeholder software projects from needs definition and planning through delivery and support while managing scope, dependencies, and changing constraints.
• Demonstrated ability to apply technical judgment across multiple related areas and systems, identify cross-system issues, evaluate alternatives, and guide practical solutions.
• Proficiency in one or more modern programming languages and object-oriented design, and experience developing extensible, well-tested, maintainable software.
• Experience with version control, code review, automated testing, technical documentation, and collaborative software-development practices.
• Experience designing or integrating APIs, databases or other data systems, and production services or workflows.
• Effective written and verbal communication skills, including the ability to work productively with scientific, technical, and operational stakeholders.
• Ability to learn new scientific and technical domains quickly and to work effectively both independently and as part of a small, collaborative team.

Preferred Qualifications

• Experience supporting scientific, clinical, bioinformatics, or other data-intensive software applications, including analysis workflows, data repositories, laboratory information systems, enterprise integrations, and large-scale data movement.
• Experience with cloud platforms such as Google Cloud Platform (GCP) or Amazon Web Services (AWS); infrastructure as code; CI/CD pipelines; containerized services such as Docker, Apptainer/Singularity, Kubernetes, or Cloud Run; workflow systems such as Nextflow, Snakemake, or Workflow Description Language (WDL) with Cromwell or similar engines; cluster job schedulers such as Slurm, LSF, or Grid Engine, or cloud batch services; Python; PostgreSQL and other relational, document-store, or graph databases; GraphQL; and event-driven architectures using tools such as Kafka or Pub/Sub.
• Experience applying security and privacy practices to sensitive or regulated data, demonstrating familiarity with applicable requirements such as the Health Insurance Portability and Accountability Act (HIPAA) and the National Institute of Standards and Technology (NIST) Special Publication (SP) 800-171, along with experience supporting audit-ready operational processes.
• Experience with genomics, computational biology, clinical bioinformatics, or high-throughput computing environments.
• Experience using AI-enabled development tools or integrating AI capabilities into software workflows, including evaluating output quality, applying data-classification requirements, and protecting against inappropriate disclosure of data.

Competencies

• Technical and Professional Skills: Demonstrates strong judgment, integrity, discipline, and reliability; appropriately prioritizes work, manages expectations, and consistently delivers on commitments.
• Collaborative & Communicative: Builds strong relationships across functions; communicates clearly and thoughtfully; listens carefully; fosters collaboration and trust.
• Adaptable & Innovative: Embraces change, anticipates challenges, develops practical solutions, and continuously seeks opportunities to improve organizational effectiveness.