University of California, San Francisco

We are integrating this unique type of physiological information about the brain with neuroimaging and EHR data to provide a comprehensive picture of each patient and their medical care.. You will join a dynamic and multi-disciplinary group of physicians, neuroscientists, and data scientists developing cutting-edge technologies and applications that leverage advanced signal processing, time-series prediction modeling, and quantitative neuroimaging.. Ph. D. in a field related to computer science, statistics, mathematics, electrical engineering, or computational biology/neuroscience. Organize, support, and maintain a central large research database with various data types including physiological time series, neuroimaging, and electronic health records.. Opportunity to collaborate with members of the Department of Neurology, Neurosurgery, and Radiology at UCSF as well as Computer Science and Statistics at UC Berkeley, Harvard Medical School, Duke, UVa, University of Pittsburgh, UCLA, Mayo Clinic, Massachusetts Institute of Technology, and other centers (

postdoctoral fellowship

This is an opportunity for a postdoctoral researcher position in the Department of Neurology and Weill Institute for Neurosciences at the University of California, San Francisco. The Amorim Lab is advancing brain health through biomedical informatics methods that harness artificial intelligence. We are focused on improving recovery after acute injury caused by trauma, cardiac arrest, epilepsy, and other serious neurological conditions. The postdoctoral fellow will be actively engaged in the NIH BRIDGE2AI program and collaborate with leaders in biomedical informatics (https://chorus4ai.org/). This position will focus on:
Biomedical Informatics: data science involving multimodal data streams and electronic health records (EHR) from the intensive care unit (ICU). Our Neurocritical Care research group employs state-of-the-art statistical and machine learning approaches to decode information from massive databases of biosignals, imaging, and EHR originating from the ICU. Our group is pursuing innovative and rigorous scientific research involving consciousness circuits in the brain, seizure and epilepsy prediction and modeling, and the effects of medications on brain rhythms and their impact on functional recovery after severe injury. We are integrating this unique type of physiological information about the brain with neuroimaging and EHR data to provide a comprehensive picture of each patient and their medical care. You will join a dynamic and multi-disciplinary group of physicians, neuroscientists, and data scientists developing cutting-edge technologies and applications that leverage advanced signal processing, time-series prediction modeling, and quantitative neuroimaging. We are actively involved with undergraduate and graduate programs at UCSF and UC Berkeley. Our group has experience using both traditional machine learning and deep learning approaches. We are a diverse team with members from various ethnic, gender, and language backgrounds who are poised to advance methods and knowledge in the neurosciences and promote the professional and personal development of all of our team members. This is a two-year postdoctoral position. Time range: This position is funded for two years full-time (100% time). Qualifications: Required
Ph.D. in a field related to computer science, statistics, mathematics, electrical engineering, or computational biology/neuroscience
Demonstrated proficiency in programming in Python and ability to create shells for automated data analysis.
Knowledge or experience with machine learning and statistical analysis.
Knowledge or experience with relational databases (SQL, NoSQL), and electronic health records.
Ability to work independently and determine when assistance from the designated supervisor is needed.
Organizational and efficiency skills, including planning and decision-making abilities to complete assigned duties promptly, attention to detail, logical thinking/analytical abilities, and problem-solving skills.
Enthusiasm, adaptability, good communication skills, and ability to work with a diverse team.
Ability to work and interact positively with people from diverse backgrounds. The candidate must possess the required qualifications by the time of appointment and the candidate’s CV and cover letter must list qualifications (or if pending) upon submission. Preferred
Knowledge and familiarity working with Jupyter Notebooks and version control (GitHub/Git).
Knowledge or experience with deep learning frameworks, e.g., TensorFlow, Keras, or PyTorch.
Knowledge of natural language processing techniques.
Knowledge of high-performance computing and dynamic modeling methods.
At least six months of experience in direct data management and analysis using medical or health care data. Under the guidance and supervision of Dr. Amorim, you will:
Perform data mining, develop algorithms, as well as analysis involving physiological and health records time-series and maintain the laboratory’s computational infrastructure and analysis tools.
Develop pipelines for data cleaning and preprocessing and data integrity tasks to optimize and correct errors, inconsistencies, or missing data needed for analyses.
Assist in acquiring and maintaining data acquisition from multiple sources including multimodal physiological time series, neuroimaging, and electronic health records.
Organize, support, and maintain a central large research database with various data types including physiological time series, neuroimaging, and electronic health records.
Assist with user-interface software development.
Ensure confidentiality for sensitive documents (protected health information) using institutional guidelines.
Collaborate with undergraduate, and graduate students as well as clinicians and other data scientists Desirable roles:
Opportunity to collaborate with members of the Department of Neurology, Neurosurgery, and Radiology at UCSF as well as Computer Science and Statistics at UC Berkeley, Harvard Medical School, Duke, UVa, University of Pittsburgh, UCLA, Mayo Clinic, Massachusetts Institute of Technology, and other centers (https://chorus4ai.org/teaming/).
Opportunity for career development and seeking external funding for projects within our laboratory. Well-qualified applicants should send the following to amorim@ucsf.edu: Cover letter (2-page maximum) indicating current and future research interests and expected availability dates;
CV (curriculum vitae);
A concise list of computational/programming skills, and how they were applied toward prior research questions if applicable;
Example(s) of computer programming experience, such as a link to your public Github or MATLAB File Exchange webpage if available;
Names and contact information for three references UC San Francisco seeks candidates whose experience, teaching, research, or community service has prepared them to contribute to our commitment to diversity and excellence. The University of California is an Equal Opportunity/Affirmative Action Employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, sexual orientation, gender identity, national origin, disability, age, or protected veteran status.

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