At Memorial Sloan Kettering (MSK), we’re not only changing the way we treat cancer, but also the way the world thinks about it. By working together and pushing forward with innovation and discovery, we’re driving excellence and improving outcomes.
For the 27th year, MSK has been named a top hospital for cancer by U.S. News & World Report. We are proud to be on Becker’s Healthcare list as one of the 150 Great Places to Work in Healthcare in 2016, as well as Glassdoor’s annual Employees’ Choice Awards 2017. We’re treating cancer, one patient at a time. Join us and make a difference every day.
Bioinformatics Engineer – Center for Molecular Oncology
The mission of the Center for Molecular Oncology (CMO) is to promote precision oncology through genomic analysis to guide the diagnosis and treatment of cancer patients. The CMO brings together clinicians and scientists throughout MSKCC to conduct large-scale translational research involving molecular characterization of patient tumor specimens in order to identify correlations between genomic features and clinical outcomes.
The Platform Informatics group within the CMO is seeking a Bioinformatics Engineer to perform next-generation sequencing data processing, analysis, and pipeline framework design in a dynamic and exciting academic environment at the nexus of cancer biology, computer science, statistics and clinical research. Work will be performed in a small group atmosphere (approximately 10 members from diverse disciplines) with several active collaborators, and in concert with other Bioinformatics and Software Engineers. Platform Informatics is currently developing data analysis pipelines and analytic platforms on both local high performance computing clusters and cloud-based resources to facilitate research activities and precision health initiatives. This position will directly contribute toward the evolution of our infrastructure design that leverages the Common Workflow Language (CWL) specification and a container-based systems approach that enable compute portability and reproducibility.
A software engineer committed to applying programming skills for research discovery and clinical benefit
Interested in the analysis of large genomic datasets and the development of new clinical technologies
Hands-on expertise running bioinformatics pipelines on genomics data
Familiarity with genomic data and metadata
Expertise with UNIX/Linux command line
Proficiency with writing Python scripts
Advanced knowledge of scripting and programming languages such as Java, C/C++, Python, Ruby, Perl and bash/csh/ksh
Familiarity with software testing methodologies and concepts
Significant experience with software container technologies such as Docker and/or Singularity
Experience with porting programs to Docker/Singularity containers; experience with deploying and using Docker/Singularity containers
Experience using CWL (Common Workflow Language) specification
Experience running bioinformatics analyses using pipelines on the cloud (AWS and/or Google)
A person who enjoys working in a team, is self-motivated, can manage multiple tasks simultaneously, and can solve problems independently
Self-directed individual with strong desire to learn and contribute in a team of technical peers.
Masters or equivalent in computer science, bioinformatics, computational biology or other applied science with at least 2 years of software development experience
Experience with the UNIX/Linux environment and clustered computing
Familiarity with source control systems, preferably Git.
Advanced skills in Python
Ability to learn and adopt new technology
Strong interest in enabling open, reproducible research
Ability to apply troubleshooting techniques to resolve complex, cross functional issues
Demonstrated ability to work independently and meet deadlines as a member of a team.
Strong organizational and troubleshooting abilities, attention to detail and accuracy.
Excellent written and verbal communication skills to interact with both biologists and IT professionals
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.
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As one of the world's premier cancer centers, Memorial Sloan-Kettering Cancer Center is committed to exceptional patient care, leading-edge research, a...nd superb educational programs. The close collaboration between our physicians and scientists is one of our unique strengths, enabling us to provide patients with the best care available today as we work to discover more effective strategies to prevent, control, and ultimately cure cancer in the future. Our education programs train future physicians and scientists, and the knowledge and experience they gain at Memorial Sloan-Kettering has an impact on cancer treatment and the biomedical research agenda around the world.