DESCRIPTION

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 Scientist will analyze cancer genomics data for projects within the lab and with external collaborators using state-of-the-art algorithms and computational methods for analysis and interpretation of large and complex datasets.

Under general supervision, the Bioinformatics Scientist's development responsibilities will include working with researchers to implement new methodologies developed by the lab and with collaborating labs, and to integrate them into the GenePattern genomics analysis platform as Gene Pattern Notebooks, i.e., complete computational analysis narratives created with the Jupyter Notebook interface to the GenePattern environment.

As a member of the development team, the incumbent will also participate in user support, including answering email help questions, writing documentation and training materials, and presenting at training workshops.

Applies skills as a seasoned, experienced IT research professional. Uses computational, computer science, data science, and software research and development principles, with relevant domain science knowledge where applicable, along with professional programming concepts for medium-sized projects or portions of larger projects. Develops and optimizes a variety of computational, data science, and research tools and components. Performs research on current and future software, technologies, projects. Works on algorithm development, optimization, programming, performance analysis and/or benchmarking assignments of moderate scope where the tasks involve knowledge of either domain / computer science research requirements and/or design/implementation requirements.

MINIMUM QUALIFICATIONS

• Bachelor's degree in Computer / Computational / Data Science, or Domain Sciences area with computer / computational / data specialization plus three (3) years of related experience/training OR Seven (7) years of related experience, education/training.

• Intermediate knowledge of data science methods and techniques.

• Advanced skills, and demonstrated experience associated with implementation and deployment of data science tools.

• Effective communication and interpersonal skills. Ability to communicate technical information to technical and non-technical personnel at various levels in the organization and to external research and education audiences.

• Proven skills and experience in independently resolving broad computing/data science problems using introductory and/or intermediate principles.

• Thorough experience working in a complex computing/data science environment encompassing all or some of the following: data science infrastructure and tools/software, and diverse domain science application base.

• Demonstrated broad experience in one or more of the following: optimizing, benchmarking, analyzing software, and applications for data science.

• Proven experience and ability to collaborate effectively with all levels of staff; technical, students, faculty and administrators

• Experience in the complete application cycle development including the development and delivery of production-quality software.

• Experience working in a Unix environment.

PREFERRED QUALIFICATIONS

• Experience in using statistical languages, such as R or MATLAB.
• Knowledge of bioinformatics file formats.

SPECIAL CONDITIONS

• Employment is subject to a criminal background check.