Bioinformatics Software Engineer

Location: New York, NY

Remote Type: Hybrid

Time Type: Full time

Job Description

The people of Memorial Sloan Kettering Cancer Center (MSK) are united by a singular mission: ending cancer for life. Our specialized care teams provide personalized, compassionate, expert care to patients of all ages. Informed by basic research done at our Sloan Kettering Institute, scientists across MSK collaborate to conduct innovative translational and clinical research that is driving a revolution in our understanding of cancer as a disease and improving the ability to prevent, diagnose, and treat it. MSK is dedicated to training the next generation of scientists and clinicians, who go on to pursue our mission at MSK and around the globe.

Exciting Opportunity at MSK: Join a mission-driven team transforming cancer care through technology! We are a passionate group of software engineers, bioinformaticians, and clinical collaborators developing next-generation informatics solutions that directly impact patient outcomes. Our work spans petabyte-scale biological datasets, high-performance computing, and cutting-edge AI/ML tools to support clinical decision-making.

We are seeking a Bioinformatic Software Engineer who thrives in fast-paced environments, is eager to learn, and is excited to build secure, scalable systems that help visualize and report genomic results guiding treatment and clinical trial enrollment.

Role Overview:

• Work and collaborate with a top-notch team of software engineers, bioinformatics researchers, AI/ML teams, data scientists, system engineers, and physicians to support clinical-grade informatics infrastructure.
• Create and maintain technical documentation including user guides, operational run books, and standard operating procedures.
• Develop DevOps framework and implement standards, processes, and controls for release and deployment activities.
• Develop API services, data dashboards, visualizations, and cutting-edge web portals.
• Design and build AI/ML solutions - including large language models (LLMs), retrieval-augmented generation (RAG), deep learning, and classical ML - integrated into secure, scalable full-stack clinical applications.

Key Qualifications:

• Bachelor’s degree in computer science, or related discipline with 4 years of hands-on software engineering experience, preferably developing scientific software such as bioinformatics or biomedical informatics systems, Master's with 2+ yrs. preferred.
• 3+ years of firsthand experience with programming languages like Python, Java, or JavaScript frameworks such as ReactJS
• Experience working with relational (MySQL, Postgres, etc.), and no-SQL (MongoDB) database technologies.
• Experience building high-throughput and scalable RESTful APIs using Python frameworks (such as Flask, FastAPI, etc.)
• Experience working with high-performance computing platforms either on-premises (LSF, Slurm, etc.) or on the cloud (especially AWS)
• Experience with agile software development practices, and experience using tools such as JIRA, or Rally
• Experience with deep learning frameworks (PyTorch, TensorFlow) – and libraries such as scikit-learn, numpy and transformers for model training and inference.
• End-to-end production AI/ML experience (LLMs, RAG), including prompt engineering, fine-tuning, vector search, model evaluation and monitoring, and MLOps within regulated clinical or PHI environments.

Core Skills:

• Strong team collaboration and communication skills.
• Passion for learning new technologies and methodologies.
• Customer-centric mindset with a desire to understand clinical workflows.
• Resilience and creativity in problem-solving.
• Ability to thrive in a dynamic, fast-paced environment.

Additional Information:

• Schedule: Monday - Friday, 37.5 hours, hybrid (in office quarterly, therefore, must reside in NYC Metro Area

• Location: 1275 York Ave, NYC

• Reporting to: Bioinformatics Software Engineer V

Helpful Links:

• Compensation Philosophy
• Benefits

#LI-HYBRID

Closing:

At MSK, we believe in fair, competitive pay that reflects your job, experience, and skills.

MSK is an equal opportunity and affirmative action employer committed to diversity and inclusion in all aspects of recruiting and employment. All qualified individuals are encouraged to apply and will receive consideration without regard to race, color, gender, gender identity or expression, sexual orientation, national origin, age, religion, creed, disability, veteran status or any other factor which cannot lawfully be used as a basis for an employment decision.  

Federal law requires employers to provide reasonable accommodation to qualified individuals with disabilities. Please tell us if you require a reasonable accommodation to apply for a job or to perform your job. Examples of reasonable accommodation include making a change to the application process or work procedures, providing documents in an alternate format, using a sign language interpreter, or using specialized equipment.