Biomedical Informatics

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PROJECT SUMMARY The objective of the Biomedical Informatics Shared Resource (BI-SR) is to provide collaborative and consultative services to Stanford Cancer Institute (SCI) members and thereby to add value in all phases of cancer research. Consultation is provided on identifying clinical data, both retrospective and prospective, along with associated omic or trial data as necessary to support the basic and translational research efforts of a discovery-oriented SCI research community. The BI-SR has developed tools for the retrieval and coding of data for analysis and visualization with attention to data quality and reproducibility. The BI-SR was split out from the previous Biostatistics and Research Informatics SR in 2017 and now operates under the direction of Daniel Rubin, MD. The core resource supported by the BI-SR is the Stanford Cancer Institute Research Database (SCIRDB), with a full menu of services provided by the BI-SR staff for data query and data vending. The SCIRDB database has continued to be developed to meet the needs of SCI members to collect, integrate, and analyze both identified and de-identified patient data from the electronic health record (EPIC) and from a wide range of other data sources, including Pathology, Molecular Diagnostics, clinical trials, and other clinically-related databases. The BI-SR also provides consultative services to ensure its optimal use. Significant contributions in this funding period included the introduction of new data (incorporation of imaging and genetic data) and the development of new software tools for federated learning of artificial intelligence (AI) applications, as well as improvement in data science infrastructure by commencing migration to the cloud. Members of all programs use the BI-SR, with the heaviest use coming from the Cancer Therapeutics and Hematologic Malignancies programs. The BI-SR has engaged in over 250 project consultation requests and provided data to over 100 cancer studies, resulting in over 15 cancer-focused publications since 2017. Two of these were high-impact publications. The annual budget of the BI-SR is $746,394, yet the CCSG request is $55,879. Accordingly, the BI-SR leverages extensive institutional support and seeks only 7% from CCSG funds. The BI-SR is focused on four specific aims: (1) to maintain and continue to develop the SCI Research Database (SCIRDB) to catalyze cancer research, (2) to provide SCI members with data science services and technologies to enable cancer research, (3) to develop infrastructure and data-driven applications to support the needs of cancer disease groups and researchers, and (4) to educate SCI members about the opportunities BI-SR’s technologies provide for enabling data-driven cancer discovery and care.