Associate Computational Scientist- Immunology and Immunotherapy

Mount Sinai Medical Center; New York, Northern (NY, KY); Hybrid; USD 72,000 - 109,000; Full time

Job summary

Mount Sinai Health System is seeking an Associate Computational Scientist within the MSSM Scientific Computing Group to enhance RNA sequencing and imaging data workflows. You will work with researchers to deploy codes on MSSM HPC clusters and support data analysis across single-cell and bulk RNA-seq and imaging datasets.

The role emphasizes building and maintaining pipelines, collaborating with software engineers, and staying updated on sequencing technology trends within a dynamic academic

Qualifications

• Masters degree or equivalent in a domain science; Ph.D. in a scientific domain preferred.
• Beginner level, with some experience in a scientific/academic computing environment or equivalent preferred.

Responsibilities

• Contribute to set up, management and maintenance of sequencing and imaging data analysis pipelines.
• Manage sequencing and imaging data storage infrastructure.
• Adapt and optimize established internal and external coding workflows to process laboratory data.
• Curate, integrate and analyze internal and external sequencing and imaging data.
• Integrate with computational and biological team members to address needs of laboratory research.
• Work with the software engineering team to ensure pipeline upgrades and new pipelines are properly implemented in laboratory workflow.
• Assist collaborators with data access, analysis, and interpretation.
• Stay current on innovations in RNA sequencing and imaging analysis.

Education

Masters degree or equivalent in a domain science

Ph.D. in a scientific domain preferred

Tools

Batch HPC clusters

Job description

Description

As a member of the MSSM Scientific Computing Group, the Associate Computational Scientist works with scientists and researchers to effectively use MSSM HPC (high performance computing) clusters; assists in the research and deployment of codes on new technologies, and works with research groups to identify, implement and improve their computational and data workflow.

The Merad laboratory (Icahn School of Medicine at Mount Sinai) is looking for a highly motivated, detail-oriented individual to join our sequencing and imaging analysis team. The bioinformatics analyst is responsible for maintaining and contributing to our RNA sequencing (single cell and bulk RNA sequencing) and multiplex image data and code repositories.

Responsibilities

• Contribute to set up, management and maintenance of sequencing and imaging data analysis pipelines.
• Manage sequencing and imaging data storage infrastructure.
• Adapt and optimize established internal and external coding workflows to process laboratory data.
• Curate, integrate and analyze internal and external sequencing and imaging data.
• Integrate with computational and biological team members to address needs of laboratory research.
• Work with the software engineering team to ensure pipeline upgrades and new pipelines are properly implemented in laboratory workflow.
• Assist collaborators with data access, analysis, and interpretation.
• Stay current on innovations in RNA sequencing and imaging analysis.

Qualifications

• Masters degree or equivalent in a domain science; Ph.D. in a scientific domain preferred.
• Beginner level, with some experience in a scientific/academic computing environment or equivalent preferred.

Preferred Skills

• Masters degree or equivalent in a domain science; Ph.D. in a scientific domain preferred and in computational biology, bioinformatics, computer science, or similar.

• Strong scientific programming skills in R, Python, bash.

• Experience with pipeline development and management.

• Experience maintaining sequencing and imaging data and code infrastructure.

• Experience in batch HPC cluster environment with a parallel file system.

• Experience working in a Linux environment and scientific workflows.

• Attention to detail, documentation, organizational, and problem-solving skills

• Experience in an academic or research community environment.

• Team-oriented with excellent written and verbal communication skills.

• Experience benchmarking various analysis tools.

• Experience working with large datasets.

• Background in genomics and statistics.

• Experience analyzing single-cell RNA sequencing data and whole-slide histopathology images is a plus.

Employer Description

Strength through Unity and Inclusion

The Mount Sinai Health System is committed to fostering an environment where everyone can contribute to excellence. We share a common dedication to delivering outstanding patient care. When you join us, you become part of Mount Sinai’s unparalleled legacy of achievement, education, and innovation as we work together to transform healthcare. We encourage all team members to actively participate in creating a culture that ensures fair access to opportunities, promotes inclusive practices, and supports the success of every individual.

At Mount Sinai, our leaders are committed to fostering a workplace where all employees feel valued, respected, and empowered to grow. We strive to create an environment where collaboration, fairness, and continuous learning drive positive change, improving the well‑being of our staff, patients, and organization. Our leaders are expected to challenge outdated practices, promote a culture of respect, and work toward meaningful improvements that enhance patient care and workplace experiences. We are dedicated to building a supportive and welcoming environment where everyone has the opportunity to thrive and advance professionally. Explore this opportunity and be part of the next chapter in our history.

About the Mount Sinai Health System:

Mount Sinai Health System is one of the largest academic medical systems in the New York metro area, with more than 48,000 employees working across eight hospitals, more than 400 outpatient practices, more than 300 labs, a school of nursing, and a leading school of medicine and graduate education. Mount Sinai advances health for all people, everywhere, by taking on the most complex health care challenges of our time — discovering and applying new scientific learning and knowledge; developing safer, more effective treatments; educating the next generation of medical leaders and innovators; and supporting local communities by delivering high-quality care to all who need it. Through the integration of its hospitals, labs, and schools, Mount Sinai offers comprehensive health care solutions from birth through geriatrics, leveraging innovative approaches such as artificial intelligence and informatics while keeping patients’ medical and emotional needs at the center of all treatment. The Health System includes more than 9,000 primary and specialty care physicians; 13 joint-venture outpatient surgery centers throughout the five boroughs of New York City, Westchester, Long Island, and Florida; and more than 30 affiliated community health centers. We are consistently ranked by U.S. News & World Report's Best Hospitals, receiving high "Honor Roll" status, and are highly ranked: No. 1 in Geriatrics, top 5 in Cardiology/Heart Surgery, and top 20 in Diabetes/Endocrinology, Gastroenterology/GI Surgery, Neurology/Neurosurgery, Orthopedics, Pulmonology/Lung Surgery, Rehabilitation, and Urology. New York Eye and Ear Infirmary of Mount Sinai is ranked No. 12 in Ophthalmology. U.S. News & World Report’s “Best Children’s Hospitals” ranks Mount Sinai Kravis Children’s Hospital among the country’s best in several pediatric specialties. The Icahn School of Medicine at Mount Sinai is ranked No. 11 nationwide in National Institutes of Health funding and in the 99th percentile in research dollars per investigator according to the Association of American Medical Colleges. Newsweek’s “The World’s Best Smart Hospitals” ranks The Mount Sinai Hospital as No. 1 in New York and in the top five globally, and Mount Sinai Morningside in the top 20 globally.

Equal Opportunity Employer

The Mount Sinai Health System is an equal opportunity employer, complying with all applicable federal civil rights laws. We do not discriminate, exclude, or treat individuals differently based on race, color, national origin, age, religion, disability, sex, sexual orientation, gender, veteran status, or any other characteristic protected by law. We are deeply committed to fostering an environment where all faculty, staff, students, trainees, patients, visitors, and the communities we serve feel respected and supported. Our goal is to create a healthcare and learning institution that actively works to remove barriers, address challenges, and promote fairness in all aspects of our organization.

Compensation

The Mount Sinai Health System (MSHS) provides salary ranges that comply with the New York City Law on Salary Transparency in Job Advertisements. The salary range for the role is $72473 - $108709 Annually. Actual salaries depend on a variety of factors, including experience, education, and operational need. The salary range or contractual rate listed does not include bonuses/incentive, differential pay or other forms of compensation or benefits.