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#94823 Bioinformatics Programmer

Extended Review Date: Mon 11/19/2018

This position will remain open until a successful candidate has been identified.

Please note that a cover letter is required.

UCSD Layoff from Career Appointment: Apply by 08/08/18 for consideration with preference for rehire. All layoff applicants should contact their Employment Advisor. Eligible Disability Counseling and Consulting services (DCC) or Special Selection clients should contact their Vocational Rehabilitation Counselor for assistance.


The Department of Medicine is responsible for fulfilling the teaching, research, and clinical missions of the University of California, San Diego and employs 500+ full-time salaried faculty members and 150+ academic appointees. Staff personnel include 800+ staff in 9 bargaining units, students, and volunteers.

There are over 250 clinical faculties practicing at multiple sites and hospitals. Professional fee billings for the department exceed $50 million with collections of over $19 million per year. The total annual budget is approximately $170 million, which includes contract and grant revenues, clinical practice and medical center funds, and other state and private endowment funds.

The Bioinformatics Programmer will work with a multi-disciplinary group to perform data analysis and also to develop new state-of-the-art analysis methods, computational algorithms and software tools to address current challenges in biomedical research. The lab’s primary analysis focus is on the genomics of cancer.

The Bioinformatics Programmer will also work as a member of the team that develops GenePattern Notebook, a software environment based on the Jupyter Notebook and GenePattern platforms, developed to integrate the benefits of reproducible electronic research narratives with a large repository of bioinformatics analysis methods, and to make these available to researchers at all levels of programming experience.

A major component of the GenePattern Notebook project is a collection of notebooks providing analysis workflows for use by the worldwide genomics research community. The Bioinformatics Programmer will develop, test, and publish GenePattern notebooks, and will train others on the programs and software as needed.


  • A Bachelor's Degree in Life Sciences, Bioinformatics, Computational Biology or other related discipline.

  • A minimum of three (3+) or more years of bioinformatics/programmer experience.

  • Thorough knowledge of research function.

  • Thorough skills in analysis and consultation.

  • Strong skill to communicate complex information in a clear and concise manner both verbally and in writing.

  • Demonstrated skills in project management.

  • Solid research skills at a level to evaluate alternate solutions and develop recommendations.

  • Thorough knowledge of computational methods and approaches, including prior experience with algorithms, data analysis, applied mathematics, probability and statistics.

  • Must be able to work well as part of an interdisciplinary team of biologists, medical researchers, computational biologists, and software developers.

  • Experience programming/scripting skills using scientific languages and computing/statistical packages such as Python and numpy, pandas, scikit, etc. Strong oral and written communication skills.

  • Demonstrated ability to develop, organize, and track projects and coordinate complex activities requiring a high level of accuracy and meticulous attention to detail.


  • Advanced degree in Life Sciences, Bioinformatics, Computational Biology, or other related discipline; or a combination of education and experience.

  • Experience with a variety of bioinformatics tools/applications and genomic databases.

  • Demonstrated experience working in a Unix environment.

  • Thorough skills associated with statistical analysis and systems programming.


  • Employment is subject to a criminal background check.

  • Must be able to work outside normal hours to meet project deadlines.

  • Must be able to answer work related questions while not physically at the work location.

  • Must be willing to work in situations where intellectual property created will be released under a permissive open-source license.

UC San Diego Health is the only academic health system in the San Diego region, providing leading-edge care in patient care, biomedical research, education, and community service. Our facilities include two university hospitals, a National Cancer Institute-designated Comprehensive Cancer Center, Shiley Eye Institute, Sulpizio Cardiovascular Center, and several outpatient clinics. UC San Diego Medical Center in Hillcrest is a designated Level I Trauma Center and has the only Burn Center in the county. We invite you to join our dynamic team!


Applications/Resumes are accepted for current job openings only. For full consideration on any job, applications must be received prior to the initial closing date. If a job has an extended deadline, applications/resumes will be considered during the extension period; however, a job may be filled before the extended date is reached.


UC San Diego Health is an Equal Opportunity/Affirmative Action Employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, national origin, disability, age, protected veteran status, gender identity or sexual orientation. For the complete University of California nondiscrimination and affirmative action policy see: http://www-hr.ucsd.edu/saa/nondiscr.html

UC San Diego is a smoke and tobacco free environment. Please visit smokefree.ucsd.edu for more information.

UC San Diego School of Medicine
Payroll Title:
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Commensurate with Experience
La Jolla
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Work Schedule:
Days, 8 hrs/day, Mon-Fri


As a federally-funded institution, UC San Diego Health maintains a marijuana and drug free campus. New employees are subject to drug screening.