As clinical and medical data is increasingly digitized, there is increasing opportunity to analyze this data for research purposes in a variety of ways that leverage “big data” characteristics of digital medical data.
Our clinical research effort employs novel analytic techniques, which include machine learning techniques, to identify complex patterns medical data derived from various sources - both collected through routine clinical care and expressly collected for research purposes. Related to this goal, the Bioinformatics Programmer/Data Scientist will assist in managing, cleaning and analyzing large scale medical data using a wide variety of analytic techniques. The Data Scientist will be involved in developing software pipelines, mostly using Python, for data extraction which will need to be developed de novo to obtain data from various clinical systems or sources. Once the data is obtained, pipelines will be created to clean the data and store the data in file-systems appropriate for the size of the data at hand. Experience with databases or the ability to learn will be requisite. Under the supervision of the PI, the Data Scientist will also be involved in data analysis, and will be fluent in comparing a variety of techniques, including machine learning and deep learning techniques, to be able to empirically determine which approach is most suitable for the given research hypothesis and data type. The ability to learn and implement new techniques depending on the problem at hand will be an essential skill, thus requiring a strong foundation in Python and competency to bootstrap novel algorithmic implementations as needs arise. This position may also include some administrative duties and will have the opportunity to participate in and lead authorship teams.
The Division of Cardiology is one of the largest clinical, research and training divisions of the Department of Medicine (DOM) at UCSF. Within the Division are sub-specialty sections for: Adult Congenital Heart Disease; Advanced Heart Failure, Transplant, and Pulmonary Hypertension; Cardiac Electrophysiology; Echocardiography and Cardiac Imaging; General Cardiology, Interventional Cardiology; and Prevention. The Division runs several clinical practices in multiple sites, conducts basic and clinical research, and educates medical students, residents, clinical fellows and postdoctoral scholars through ACGME as well as non-ACGME training programs. In addition, the Division has significant and complex financial and administrative relationships with the Department of Medicine (DOM) and the UCSF Medical Center, as well as large patient care programs in the sections noted above, large clinical, Federal, and privately supported research programs and six faculty laboratories.
The Division has 60 full-time faculty, 4 non-faculty academics, 36 clinical fellows, 3 post-doctoral research fellows, 7 WOS faculty, 3 MSP physicians and 57 research support and administrative staff. The Division currently expends over $22 million per year in pursuit of its clinical, research, training, and service missions. While the Division is primarily split between the Parnassus and Mission Bay campuses, fellows have rotations at the Zuckerberg San Francisco General Hospital and the San Francisco Veterans Affairs Medical Center.
The Tison lab is also part of the Bakar Computational Health Sciences Institute and the Data Scientist will be part of the larger computational community and infrastructure.
The University of California, San Francisco (UCSF) is a leading university dedicated to promoting health worldwide through advanced biomedical research, graduate-level education in the life sciences and health professions, and excellence in patient care. It is the only campus in the 10-campus UC system dedicated exclusively to the health sciences.