Computer Specialist
Job Details
Public Health Labs - , NY
Computer Specialist

The Fund for Public Health in New York City (FPHNYC) is a 501(c)3 non-profit organization that is dedicated to the advancement of the health and well-being of all New Yorkers.  To this end, in partnership with the New York City Department of Health and Mental Hygiene (DOHMH), FPHNYC incubates innovative public health initiatives implemented by DOHMH to advance community health throughout the city. It facilitates partnerships, often new and unconventional, between government and the private sector to develop, test, and launch new initiatives. These collaborations speed the execution of demonstration projects, effect expansion of successful pilot programs, and support rapid implementation to meet the public health needs of individuals, families, and communities across New York City. 


The mission of the Public Health Laboratory (PHL) is to ensure the health of all New York City (NYC) residents by providing quality laboratory testing services which address the needs of the NYC DOHMH and its community partners as they respond to clinical and environmental public health concerns. 



PHL is seeking to hire a qualified Computer Specialist. This position will supervise staff and participate in computer science activities that support Whole Genome Sequencing (WGS) of SARS-CoV-2 and other emerging pathogens at PHL and coordinating these activities with external and internal partners. This is an excellent opportunity to join our team and continue to make history at the world's first municipal public health laboratory.



•           Perform high-level supervisory functions in laboratory setting such as advising staff of
            appropriate methods and techniques, oversee the work of personnel to ensure accurate

•           Assist with improving, enhancing, and installing genomic sequencing pipelines software on
            Linux servers

•           Create systems to automate curation of genomic metadata and demographic data associated
            with specimen that have been sequenced

•           Improve quality control systems and automate processes

•           Develop data visualization dashboards and front-end user interface to process data

•           Contribute to the development of technical and standard operating procedure documentations

•           Test new or updated bioinformatics software and tools. Perform validation and quality
             assurance testing

•           Train users to operate bioinformatics pipelines and tools that are developed by the
            Bioinformatics Unit

•           Participate in the design and implementation of bioinformatics tools and methods

•           Design and participate in Next Generation Sequencing Analysis research studies and
            supervise staff in conducting research projects

•           Represent the agency in meetings and conferences

•           Coordinate WGS activities with intra- and inter-agency partners

•           Draft and approve written protocols (SOPs)

•           Maintain accurate records of methods and software tools design

•           Write original manuscripts for publication based on data analyses and product development


Experience with common tools for Next Generation Sequencing Analysis, including reference-based analysis and knowledge of bioinformatics procedures

  • Strong background in systems integration
  • Exceptional skills in Linux command line and BASH shell scripting required
  • Proficient in R, Python, C, Java, or other object-oriented programming languages
  • Experience in SQL preferred
  • Experience with utilizing multi-core server resources and automating processes
  • Experience working with large data sets or big data analysis
  • Basic understanding in biology and genomics is a plus
  • Have front end and data visualization experience


MS in Computer Science or related fields with extensive experience in the technical and administrative operations of a Clinical or Public Health Laboratory.

Strong analytical and organizational skills; Excellent oral, inter-personal and written communication skills


FPHNYC offers a comprehensive benefits package. The salary range for this position is commensurate with experience. 




There is a potential for this position to transition to the Department of Health and Mental Hygiene.

DOHMH has a residency requirement that must be met within 90 days of appointment at DOHMH.



To apply, send Resume, with Cover Letter, including how your experience relates to this position. We ask that you do not contact our staff directly and no phone inquiries please. Applicants who best match the position needs will be contacted.


The Fund for Public Health in New York City is an Equal Opportunity Employer and encourages a diverse pool of candidates to apply.