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, diversity, 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 diversity, inclusion, and individual skills, ideas, and knowledge. For more information, go tomed.nyu.edu, and interact with us onLinkedIn,Glassdoor,Indeed,Facebook,TwitterandInstagram.

Position Summary:

The Center for Human Genetics and Genomics is seeking an experienced bioinformatics programmer to join the deciphEHR team, which is pioneering genomic medicine at NYU Grossman School of Medicine. This role is a key part of a dynamic and rapidly growing project to develop software for optimizing and integrating large-scale genome sequence processing linked to EPIC EHR (electronic health records). Specifically, the individual will develop the data infrastructure for processing and querying large genomic datasets by our end users, as well as involved in cutting edge genomic medicine research. We seek and individual who is experienced in writing production grade bioinformatics pipelines with database/data warehouse integration experience, as well as have some experience in independent research.

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:
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:

Experience with the Glow framework for genomic variant ingestion to cloud/Spark/Hadoop is a big plus.

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.

NYU Grossman School of Medicine 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, sex, sexual orientation, transgender status, gender dysphoria, national origin, age, religion, disability, military and veteran status, marital or parental status, citizenship status, genetic information or any other factor which cannot lawfully be used as a basis for an employment decision. 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 - $100,000.00 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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