Senior Bioinformatics Programmer

NYU Grossman School of Medicine is one of the nation's top-ranked medical schools. For 175 years, NYU Grossman School of Medicine has trained thousands of physicians and scientists who have helped to shape the course of medical history and enrich the lives of countless people. An integral part of NYU Langone Health, the Grossman School of Medicine at its core is committed to improving the human condition through medical education, scientific research, and direct patient care. At NYU Langone Health, equity and inclusion are fundamental values. We strive to be a place where our exceptionally talented faculty, staff, and students of all identities can thrive. We embrace inclusion and individual skills, ideas, and knowledge.

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Position Summary :

We have an exciting opportunity to join our team as a Senior Bioinformatics Programmer.

The Center for Human Genetics and Genomics is seeking an experienced bioinformatics programmer to join the deciphEHR team, pioneering genomic medicine at NYU Grossman School of Medicine. This role is a key part of a dynamic and rapidly growing project. The candidate will write software to optimize and integrate large-scale whole genome sequencing (WGS) processing and electronic health records (her) data. Specifically, the individual will develop the data infrastructure for processing and querying large genomic datasets by our end users, as well as be involved in cutting edge genomic medicine research. We seek an individual experienced in writing production grade bioinformatics pipelines with experience in database / data warehouse integration in a research or clinical setting.

Job Responsibilities :

Develop production genomic workflows on HPC as well as cloud environments

Develop a genomic data warehouse for efficient querying of large data using Glow

Perform data processing and QC for genomic and clinical datasets

Participate in data and software maintenance work for our team

Document all required software, code, and experiments

Extract and manage multidimensional descriptive, numeric and digital data from the EPIC EHR database for phenotype analysis

Minimum Qualifications :

To qualify you must have a Master's degree in computer science / data science / bioinformatics / Statistics / Information Science or related technical disciplines.

Proven programming skills in Python, Bash / UNIX, R. Proficient in Git for version control.

At least one year experience with a big data technology such as Spark, Hadoop, etc.

At least 3 years of experience with a workflow language (WDL, Snake-make), Docker / Singularity, and HPC.

At least 4 years of experience with standard genomics bioinformatics tools (PLINK, GATK, etc).

Must be able to work in a demanding and dynamic team environment and work independently. Knowledge of algorithms and data-structures. Experience with Web-based application development languages such as HTML / JavaScript. Must demonstrate excellent communication skills, both oral and written, within the team and end users.

Preferred Qualifications :

Ph.D. in Computer Science / Data Science / Bioinformatics / Statistics / Information Science or related technical disciplines.

Candidates with a Master's degree in the above fields will be considered if they possess significant relevant experience.

Familiarity with Databricks for big data analytics and managing large-scale genomic datasets

Qualified candidates must be able to effectively communicate with all levels of the organization.

NYU Grossman School of Medicine provides its staff with far more than just a place to work. Rather, we are an institution you can be proud of, an institution where you'll feel good about devoting your time and your talents. At NYU Langone Health, we are committed to supporting our workforce and their loved ones with a comprehensive benefits and wellness package. Our offerings provide a robust support system for any stage of life, whether it's developing your career, starting a family, or saving for retirement. The support employees receive goes beyond a standard benefit offering, where employees have access to financial security benefits, a generous time-off program and employee resources groups for peer support. Additionally, all employees have access to our holistic employee wellness program, which focuses on seven key areas of well-being : physical, mental, nutritional, sleep, social, financial, and preventive care. The benefits and wellness package is designed to allow you to focus on what truly matters. Join us and experience the extensive resources and services designed to enhance your overall quality of life for you and your family.

NYU Grossman School of Medicine is an equal opportunity employer and committed to inclusion in all aspects of recruiting and employment. All qualified individuals are encouraged to apply and will receive consideration. We require applications to be completed online.

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NYU Langone Health provides a salary range to comply with the New York state Law on Salary Transparency in Job Advertisements. The salary range for the role is $81,325.15 - $128,785.23 Annually. Actual salaries depend on a variety of factors, including experience, specialty, education, and hospital need. The salary range or contractual rate listed does not include bonuses / incentive, differential pay or other forms of compensation or benefits.

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