Overview RDF is a standard model for data interchange on the Web. RDF has features that facilitate data merging even if the underlying schemas differ, and it specifically supports the evolution of schemas over time without requiring all the data consumers to be changed. RDF extends the linking structure of the Web to use URIs to name the relationship between things as well as the two ends of the link (this is usually referred to as a “triple”).
Much like a relational database, one stores information in a triplestore and retrieves it via a query language. Unlike a relational database, a triplestore is optimized for the storage and retrieval of triples. In addition to queries, triples can usually be imported/exported using Resource Description Framework (RDF) and other formats. Some triplestores can store billions of triples. Implementation Some triplestores have been built as database engines from scratch, while others have been built on top of existing commercial relational database engines (i.e. Triplestore
AI3 Assembles 26 Candidate Tools The pending UMBEL subject concept “backbone” ontology will involve literally thousands of concepts. In order to manage and view such a large structure, a concerted effort to find suitable graph visualization software was mounted. This post presents the candidate listing, as well as some useful starting resources and background information.
Cytoscape: Hands-down Winner for Large-scale Graph Visualization I still never cease to be amazed at how wonderful and powerful tools are so often and easily overlooked. The most recent example is Cytoscape, a winner in our recent review of more than 25 tools for large-scale RDF graph visualization. We began this review because the UMBEL subject concept “backbone” ontology will involve literally thousands of concepts.
NRNB and Cytoscape Introduction to the National Resource for Network Biology How to Cite Cytoscape Cytoscape project needs your support! Please cite either of the following papers when you use Cytoscape in your publications, which is very important to sustain our federal funding. Saito R, Smoot ME, Ono K, Ruscheinski J, Wang PL, Lotia S, Pico AR, Bader GD, Ideker T.