An Open-Source Knowledge Graph Ecosystem for the Life Sciences

1 code implementation • 11 Jul 2023 • Tiffany J. Callahan, Ignacio J. Tripodi, Adrianne L. Stefanski, Luca Cappelletti, Sanya B. Taneja, Jordan M. Wyrwa, Elena Casiraghi, Nicolas A. Matentzoglu, Justin Reese, Jonathan C. Silverstein, Charles Tapley Hoyt, Richard D. Boyce, Scott A. Malec, Deepak R. Unni, Marcin P. Joachimiak, Peter N. Robinson, Christopher J. Mungall, Emanuele Cavalleri, Tommaso Fontana, Giorgio Valentini, Marco Mesiti, Lucas A. Gillenwater, Brook Santangelo, Nicole A. Vasilevsky, Robert Hoehndorf, Tellen D. Bennett, Patrick B. Ryan, George Hripcsak, Michael G. Kahn, Michael Bada, William A. Baumgartner Jr, Lawrence E. Hunter

Translational research requires data at multiple scales of biological organization.

Knowledge Graphs

ReDWINE: A Clinical Datamart with Text Analytical Capabilities to Facilitate Rehabilitation Research

no code implementations • 12 Apr 2023 • David Oniani, Bambang Parmanto, Andi Saptono, Allyn Bove, Janet Freburger, Shyam Visweswaran Nickie Cappella, Brian McLay, Jonathan C. Silverstein, Michael J. Becich, Anthony Delitto, Elizabeth Skidmore, Yanshan Wang

Using this comprehensive representation of patient data in ReDWINE for rehabilitation research will facilitate real-world evidence for health interventions and outcomes.

Data Visualization

Construction and Usage of a Human Body Common Coordinate Framework Comprising Clinical, Semantic, and Spatial Ontologies

no code implementations • 28 Jul 2020 • Katy Börner, Ellen M. Quardokus, Bruce W. Herr II, Leonard E. Cross, Elizabeth G. Record, Yingnan Ju, Andreas D. Bueckle, James P. Sluka, Jonathan C. Silverstein, Kristen M. Browne, Sanjay Jain, Clive H. Wasserfall, Marda L. Jorgensen, Jeffrey M. Spraggins, Nathan H. Patterson, Mark A. Musen, Griffin M. Weber

The CCF enables contributors to HuBMAP to 'register' specimens and datasets within a common spatial reference system, and it supports a standardized way to query and 'explore' data in a spatially and semantically explicit manner.