Search · four archives
Search · four archives
13 papers · ranked by Valyu relevance
Ciyuan Peng, Feng Xia, Mehdi Naseriparsa, Francesco Osborne
With the explosive growth of artificial intelligence (AI) and big data, it has become vitally important to organize and represent the enormous volume of knowledge appropriately. As graph data, knowledge graphs accumulate and convey knowledge of the real world. It has been well-recognized that knowledge graphs…
Amy K Glen, Eric W Deutsch, Stephen A Ramsey, Christina Kendziorski
Knowledge graphs (KGs) have emerged as useful abstractions for integrating heterogeneous biomedical data, making them convenient substrates for data mining and other computational reasoning techniques. The way in which such knowledge graphs are exposed for use varies; some graphs are only available for flat-file…
Parisa Kordjamshidi, Dan Roth, Kristian Kersting
Data-driven approaches are becoming increasingly common as problem-solving tools in many areas of science and technology. In most cases, machine learning models are the key component of these solutions. Often, a solution involves multiple learning models, along with significant levels of reasoning with the models'…
Amy K. Glen, Chunyu Ma, Luis Mendoza, Finn Womack + 11 more
With the rapidly growing volume of knowledge and data in biomedical databases, improved methods for knowledge-graph-based computational reasoning are needed in order to answer translational questions. Previous efforts to solve such challenging computational reasoning problems have contributed tools and approaches, but…
Amy K. Glen, Eric W. Deutsch, Stephen A. Ramsey
Knowledge graphs are increasingly being used to integrate heterogeneous biomedical knowledge and data. General-purpose graph database management systems such as Neo4j are often used to host and search knowledge graphs, but such tools come with overhead and leave biomedical-specific standards compliance and reasoning to…
Amy K. Glen, Eric W. Deutsch, Stephen A. Ramsey
1## Introduction Knowledge graphs (KGs) have emerged as useful abstractions for integrating heterogeneous biomedical data, making them convenient substrates for data mining and other computational reasoning techniques. The way in which such knowledge graphs are exposed for use varies; some graphs are only available for…
Shilpa Verma, Rajesh Bhatia, Sandeep Harit, Sanjay Batish
The necessity for scholarly knowledge mining and management has grown significantly as academic literature and its linkages to authors produce enormously. Information extraction, ontology matching, and accessing academic components with relations have become more critical than ever. Therefore, with the advancement of…
Lars Vogt, Kheir Eddine Farfar, Pallavi Karanth, Marcel Konrad + 3 more
Knowledge graphs and ontologies are promising technologies for achieving FAIR (findable, accessible, interoperable, and reusable) data. We identify four challenges as high barriers for the effective use of knowledge graphs. Since the construction of knowledge graphs is a modelling task and every model serves a purpose…
E. C. Wood, Amy K. Glen, Lindsey G. Kvarfordt, Finn Womack + 13 more
Biomedical translational science is increasingly using computational reasoning on repositories of structured knowledge (such as UMLS, SemMedDB, ChEMBL, Reactome, DrugBank, and SMPDB in order to facilitate discovery of new therapeutic targets and modalities. The NCATS Biomedical Data Translator project is working to…
Yichun Feng, Lu Zhou, Yikai Zheng, Ruikun He + 2 more
In recent years, Large Language Models (LLMs) have shown promise in various domains, notably in biomedical sciences. However, their real-world application is often limited by issues like erroneous outputs and hallucinatory responses. We developed the Knowledge Graph-based Thought (KGT) framework, an innovative solution…
Guangrong Qin, Kamileh Narsinh, Qi Wei, Jared C. Roach + 15 more
'Arpita Joshi' 'Skye L. Goetz' 'Sierra T. Moxon' 'Matthew H. Brush' 'Colleen Xu' 'Yao Yao' 'Amy K. Glen' 'Evan D. Morris' 'Alexandra Ralevski' 'Ryan Roper' 'Basazin Belhu' 'Yue Zhang' 'Ilya Shmulevich' 'Jennifer Hadlock' 'Gwênlyn Glusman'] As large clinical and multiomics datasets and knowledge resources accumulate…
Guangrong Qin, Kamileh Narsinh, Qi Wei, Jared C. Roach + 15 more
As large clinical and multiomics datasets and knowledge resources accumulate, they need to be transformed into computable and actionable information to support automated reasoning. These datasets range from laboratory experiment results to electronic health records (EHRs). Barriers to accessibility and sharing of such…
David Geleta, Andriy Nikolov, Gavin Edwards, Anna Gogleva + 10 more
The use of knowledge graphs as a data source for machine learning methods to solve complex problems in life sciences has rapidly become popular in recent years. Our Biological Insights Knowledge Graph (BIKG) combines relevant data for drug development from public as well as internal data sources to provide insights for…