
Publication: Using the Semantic Web for Rapid Integration of WikiPathways with Other Biological Online Data Resources
The diversity of online resources storing biological data in different formats provides a challenge for bioinformaticians to integrate and analyse their biological data. The semantic web provides a standard to facilitate knowledge integration using statements built as triples describing a relation between two objects. WikiPathways, an online collaborative pathway resource,…
Poster: Where do you go from here? Semantics of directions in biological pathways
SWAT4LS International Conference 2015, Cambridge, UK View poster
Poster: Biological Interactions Types for WikiPathways
HARMONY 2015, Wittenberg, Germany View poster
Publication: Scientific Lenses to Support Multiple Views over Linked Chemistry Data
When are two entries about a small molecule in different datasets the same? If they have the same drug name, chemical structure, or some other criteria? The choice depends upon the application to which the data will be put. However, existing Linked Data approaches provide a single global view over…
Publication: Applying Linked Data Approaches to Pharmacology: Architectural Decisions and Implementation
The discovery of new medicines requires pharmacologists to interact with a number of information sources ranging from tabular data to scientific papers, and other specialized formats. In this application report, we describe a linked data platform for integrating multiple pharmacology datasets that form the basis for several drug discovery applications….
Publication: Nanopublication Guidelines
This document describes the structure of nanopublications and offers guidelines in their composition, implementation and use. It was produced by members of the Concept Web Alliance (CWA), an open collaborative community that is actively addressing the challenges associated with the production, management, interoperability and analysis of unprecedented volumes of data….
Publication: Guidelines for exposing data as RDF in Open PHACTS
This is a “how to” guide for exposing your data in RDF in the Open PHACTS system. Carina Haupt, Andra Waagmeester, Marc Zimmerman, Egon Willighagen Full publication: Open PHACTS Working Draft 07 October 2013
Publication: Dataset Descriptions for the Open Pharmacological Space
This is a specification for the metadata to described datasets, and the linksets that relate them, to enable their use within the Open PHACTS discovery platform. The specification defines the metadata properties that are expected to describe datasets and linksets; detailing the creation and publication of the dataset. Details of…
Conference: ISMB/ECCB 2013
2013 ISMB/ECCB Conference, Berlin, Germany Chris Evelo (Maastricht University) gave a presentation: Opening Up Pharmacological Space: The Open PHACTS API and presented a poster: Scientific Lenses: An Approach to Dynamically Vary the Relationships between Datasets Andra Waagmeester (Maastricht University) presented a poster at the pre-meeting Tutorials: Visualizing Linked Open Data in Biological Pathways and…
Conference: NBIC 2013
Netherlands Bioinformatics Conference 2013, Lunteren, the Netherlands Andra Waagmeester (Maastricht University) gave a presentation: Visualizing Biological Linked Open Data Anwesha Bohler (Maastricht University) gave a presentation: PathVisio3: new features for pathway analysis and visualization
Publication: The Pharmacology Workspace: A Platform for Drug Discovery
We present the Open PHACTS linked data platform that is being developed to address a set of example drug discovery research questions and which supports several drug discovery applications. The platform retrieves data from many complementary, but overlapping, data sources to present an integrated view of the data. The platform…