BIOINFORMATICS ENGINEER
Apply NowCompany: University of Washington
Location: Seattle, WA 98115
Description:
The Department of Laboratory Medicine serves as a regional resource for clinical laboratory services required for patient care, research, and educational programs in laboratory medicine. The department now employs 1400 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.
The Department of Laboratory Medicine and Pathology department has an outstanding opportunity for a highly skille BIOINFORMATICIST (FULL-TIME, DAY-SHIFT) in the virology laboratory of Dr. Alex Greninger MD,PhD, MS, MPhil. This position will involve the bioinformatic analysis of viral genomics and systems biology data to understand viral replication. The position will also be responsible for developing and deploying pipelines to enable the rapid sharing of viral genomic sequence data from the UW Virology clinical virology lab in NCBI/INSDC databases, as well as analysis of viral genomics data from clinical trials for vaccines, antivirals, and diagnostics. The ideal candidate will have prior experience publishing first-author manuscripts on bioinformatic analysis of viral genomics data as well as experience in the highly regulated areas of the clinical lab and clinical trials. Additionally, they should be willing to work in a highly collaborative environment, be able to adapt quickly, possess strong communication skills, and have the capacity to work independently.
RESPONSIBILITIES:
Develop next-generation sequencing data analysis pipelines, preferably developing user-friendly interfaces for running those pipelines, and manage the storage and organization of next-generation sequencing data using both commercial and open source software.
Support of routine data management to support clinical next-generation sequencing assays (i.e., data transfer, analysis, storage, and retrieval).
Administration of scientific computing infrastructure.
Maintenance of software pipelines for data analysis (i.e., maintaining our customized environment, software, and infrastructure for performing analyses).
Design and construction of database tools for managing historical results and interpretive data (such as a database categorizing genomic polymorphisms).
Design and construction of web-based decision support tools providing interpretive information for health care providers.
Develop software that integrates next generation sequencing data with an existing database that tracks molecular microbiology clinical workflow.
Develop software that integrates next generation sequencing data with publicly available databases such the NCBI Genbank (NT/NR databases), taxonomy, and Short Read Archive.
Analysis (sequence database search, alignment, assembly, taxonomic classification, SNP analysis), visualization, and reporting of biological sequence data.
REQUIREMENTS:
BS in Computer Science, Engineering, Bioinformatics, Physics, Applied Math or a related discipline OR extensive professional experience in software design and/or development or Bioinformatics AND at least four years of relevant experience.
Demonstrated programming skills, particularly in Python, R, and sql databases. At least some experience with Python is required. Experience with R is also important.
Skills with LINUX/UNIX system administration.
Experience with manipulation and analysis of high volume biological data.
Experience with commonly used software tools for biological sequence analysis.
Basic understanding of molecular biological concepts.
Excellent spoken and written communication and documentation skills.
Committed to attracting and retaining a diverse staff, the University of Washington will honor your experiences, perspectives and unique identity. Together, our community strives to create and maintain working and learning environments that are inclusive, equitable and welcoming.
The University of Washington is an affirmative action and equal opportunity employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, sexual orientation, gender identity, gender expression, national origin, age, protected veteran or disabled status, or genetic information.
To request disability accommodation in the application process, contact the Disability Services Office at [redacted] or [redacted].
Applicants considered for this position will be required to disclose if they are the subject of any substantiated findings or current investigations related to sexual misconduct at their current employment and past employment. Disclosure is required under Washington state law.
The Department of Laboratory Medicine and Pathology department has an outstanding opportunity for a highly skille BIOINFORMATICIST (FULL-TIME, DAY-SHIFT) in the virology laboratory of Dr. Alex Greninger MD,PhD, MS, MPhil. This position will involve the bioinformatic analysis of viral genomics and systems biology data to understand viral replication. The position will also be responsible for developing and deploying pipelines to enable the rapid sharing of viral genomic sequence data from the UW Virology clinical virology lab in NCBI/INSDC databases, as well as analysis of viral genomics data from clinical trials for vaccines, antivirals, and diagnostics. The ideal candidate will have prior experience publishing first-author manuscripts on bioinformatic analysis of viral genomics data as well as experience in the highly regulated areas of the clinical lab and clinical trials. Additionally, they should be willing to work in a highly collaborative environment, be able to adapt quickly, possess strong communication skills, and have the capacity to work independently.
RESPONSIBILITIES:
REQUIREMENTS:
Committed to attracting and retaining a diverse staff, the University of Washington will honor your experiences, perspectives and unique identity. Together, our community strives to create and maintain working and learning environments that are inclusive, equitable and welcoming.
The University of Washington is an affirmative action and equal opportunity employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, sexual orientation, gender identity, gender expression, national origin, age, protected veteran or disabled status, or genetic information.
To request disability accommodation in the application process, contact the Disability Services Office at [redacted] or [redacted].
Applicants considered for this position will be required to disclose if they are the subject of any substantiated findings or current investigations related to sexual misconduct at their current employment and past employment. Disclosure is required under Washington state law.