The Department of Laboratory Medicine and Pathology serves as a regional resource for clinical laboratory services required for patient care, research and educational programs in laboratory medicine. The department now employs 900 people who work at the award-winning University of Washington Medical Center (ranked among the top medical centers in the United States as rated by U.S. News & World Report), Harborview Medical Center (the region's only Level I Trauma center, known for innovations and excellence in trauma care and its centers of emphasis: Trauma, Burn, Neurosciences, AIDS/STD CARER, and mentally- and medically- vulnerable populations.), and many other clinical and research facilities in the area. The University of Washington (UW) is proud to be one of the nation’s premier educational and research institutions. Our people are the most important asset in our pursuit of achieving excellence in education, research, and community service. Our staff not only enjoys outstanding benefits and professional growth opportunities, but also an environment noted for diversity, community involvement, intellectual excitement and natural beauty.
Our LABORATORY MEDICINE AND PATHOLOGY DEPARTMENT has an outstanding full-time position for a Senior Computer Specialist. This position will support bioinformatics for the next-generation sequencing assays in Virology. The selected candidate will perform analysis and development work in a state-of-the art clinical laboratory, working closely with M.D./Ph.D. faculty members.
Execute and support the development of next-generation sequencing data analysis pipelines, preferably develop user-friendly interfaces for running those pipelines, and assist with storage and organization of next-generation sequencing data using both commercial and open source software.
Administration of scientific computing infrastructure.
Maintenance of software pipelines for data analysis.
Design and construction of database tools for managing historical results and interpretive data.
Analysis, visualization, and reporting of biological sequence data.
Support of routine data management to support next-generation sequencing assays.
In collaboration with the Software Engineer, design and construction of web-based decision support tools providing interpretive information for health care providers.
In collaboration with the Software Engineer, develop software that integrates next generation sequencing data with an existing database that tracks molecular microbiology clinical workflow.
Execute software that integrates next generation sequencing data with publicly available databases such the NCBI Genbank (NT/NR databases), taxonomy, and Short Read Archive.
Other duties as required.
Requirements: BS in Computer Science, Engineering, Biology Sciences or a related discipline AND two to three years of relevant experience.
An equivalent combination of education and experience may substitute for stated requirements.
Demonstrated programming skills, particularly in Python, R, and sql databases.
Skills with LINUX/UNIX system administration.
Experience with manipulation of high-volume biological data.
Experience with commonly used software tools for biological sequence analysis.
Basic understanding of molecular biological concepts.
Strong spoken and written communication and documentation skills.
Experience in contribution to open source projects.
Experience in collaborative software development (use of version control software, writing and following software specifications, participation in code review).
Knowledge of basic molecular biology, virology, clinical genetics, and clinical microbiology.
Wet-bench experience performing PCR and sequencing-based assays.
Experience with molecular diagnostics.
Conditions of Employment:
It will be necessary to work in other departmental locations in order to meet patient service requirements, including 1616 Eastlake, Harborview Medical Center, and South Lake Union. In addition, less frequent work effort will be required at other UW School of Medicine locations and Seattle-area healthcare institutions.
Will be considered essential staff and as such will be required to report to work when scheduled despite inclement weather.
Founded in 1861, the University of Washington is one of the oldest public institutions in the west coast and one of the preeminent research universities in the world. The University of Washington is a multi-campus university comprised of three different campuses: Seattle, Tacoma, and Bothell. The Seattle campus is made up of sixteen schools and colleges that serve students ranging from an undergraduate level to a doctoral level. The university is home to world-class libraries, arts, music, drama, and sports, as well as the highest quality medical care in Washington State and a world-class academic medical center. The teaching and research of the University’s many professional schools provide undergraduate and graduate students the education necessary toward achieving an excellence that will serve the state, the region, and the nation. As part of a large and diverse community, the University of Washington serves more students than any other institution in the Northwest.