Publication: The FAIR Guiding Principles for scientific data management and stewardship

There is an urgent need to improve the infrastructure supporting the reuse of scholarly data. A diverse set of stakeholders—representing academia, industry, funding agencies, and scholarly publishers—have come together to design and jointly endorse a concise and measureable set of principles that we refer to as the FAIR Data Principles….

Linking Life Science Data: Design to Implementation, and Beyond

Open PHACTS project closing conference (Vienna, Austria)

Conference: DTL On Track

DTL On Track (DTL and ELIXIR-NL kickoff), Amersfoort, the Netherlands Paul Groth (VU University Amsterdam) represented Open PHACTS

Publication: On the formulation of performant SPARQL queries

The combination of the flexibility of RDF and the expressiveness of SPARQL provides a powerful mechanism to model, integrate and query data. However, these properties also mean that it is nontrivial to write performant SPARQL queries. Indeed, it is quite easy to create queries that tax even the most optimised…

Presentation: The Knowledge-Remixing Bottleneck – Hidden Decisions

On October 19, 2014, Posted by , In Presentations, By ,,,, , With No Comments

Workshop on Context, Interpretation and Meaning, held at the International Semantic Web Conference (ISWC) 2014 at Riva del Garda, Trentino, Italy Paul Groth (VU University Amsterdam) View presentation

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…

Conference: ProvenanceWeek 2014

ProvenanceWeek 2014, Cologne, Germany Paul Groth (VU University Amsterdam) represented Open PHACTS

Presentation: Provenance: An Introduction to PROV

5th International Provenance and Annotation Workshop, Cologne, Germany Paul Groth (Vrije Universitat Amsterdam) View presentation

Conference: IPAW 2014 – 5th International Provenance and Annotation Workshop

On June 13, 2014, Posted by , In Conferences, By ,,,,, , With No Comments

5th International Provenance and Annotation Workshop, Cologne, Germany Paul Groth (Vrije Universitat Amsterdam) gave a presentation: Provenance: An Introduction to PROV

Publication: Querying neXtProt nanopublications and their value for insights on sequence variants and tissue expression

Understanding how genetic differences between individuals impact the regulation, expression, and ultimately function of proteins is an important step toward realizing the promise of personal medicine. There are several technical barriers hindering the transition of biological knowledge into the applications relevant to precision medicine. One important challenge for data integration…

Conference: 11th ESWC 2014

11th ESWC 2014, Crete, Greece Paul Groth (VU University Amsterdam) represented Open PHACTS

Conference: US NSF Data Citation Workshop

US National Science Foundation Workshop: Computational Challenges in Data Citation, Philadelphia, USA Paul Groth (VU University Amsterdam) gave a presentation: Data Citation and Linked Open Data – From links to citation?

Presentation: Data Citation and Linked Open Data – From links to citation?

US National Science Foundation Workshop: Computational Challenges in Data Citation, Philadelphia, USA Paul Groth (VU University Amsterdam) View presentation

Conference: European Data Forum 2014

European Data Forum 2014, Athens, Greece Paul Groth (VU University Amsterdam) gave a presentation: A Platform for Drug Discovery

Presentation: A Data Platform for Drug Discovery

European Data Forum 2014, Athens, Greece Paul Groth (VU University Amsterdam) View presentation Watch presentation video

Presentation: Linked Data API (LDA)

On February 6, 2014, Posted by , In Presentations, By ,, , With No Comments

EUCLID Project screencast Paul Groth (VU University Amsterdam) Watch presentation video Read presentation notes

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….

Conference: ISWC 2013

ISWC 2013, The 12th International Semantic Web Conference, Sydney, Australia Paul Groth (VU University Amsterdam) and Carole Goble (University of Manchester) submitted a paper: Incorporating private and commercial data into an open linked data platform for drug discovery Alasdair Gray (Heriot-Watt University) gave a presentation for the ISWC 2013 Semantic Web…

Conference: COLD 2013

COLD 2013, Fourth International Workshop on Consuming Linked Data, Sydney, Australia Alasdair Gray (Heriot-Watt University) gave a presentation: Including Co-referent URIs in a SPARQL Query, and a full paper with the same title was submitted

Publication: Provenance: An Introduction to PROV

The World Wide Web is now deeply intertwined with our lives, and has become a catalyst for a data deluge, making vast amounts of data available online, at a click of a button. With Web 2.0, users are no longer passive consumers, but active publishers and curators of data. Hence,…

Webinar: Using the Open PHACTS API

Paul Groth (VU University Amsterdam) presents a webinar explaining how to use the Open PHACTS API: the data, technical setup, and what can be done with it. Watch presentation video | View presentation slides

Poster: Scientific Lenses: An Approach to Dynamically Vary the Relationships between Datasets

2013 ISMB/ECCB Conference, Berlin, Germany View poster

Conference: 10th ESWC 2013

10th ESWC 2013, Montpellier, France Paul Groth (VU University Amsterdam) presented Open PHACTS

Project Meeting: EHR4CR

On January 22, 2013, Posted by , In Project Meetings, By ,, , With No Comments

Semantic Interoperability meeting for the IMI project EHR4CR (Paris, France). Paul Groth presented Open PHACTS at this meeting.

Publication: Scientific Lenses over Linked Data: An approach to support task specific views of the data. A vision.

Within complex scientific domains such as pharmacology, operational equivalence between two concepts is often context-, user- and task-specific. Existing Linked Data integration procedures and equivalence services do not take the context and task of the user into account. We present a vision for enabling users to control the notion of operational…

Publication: Theoretical and technological building blocks for an innovation accelerator

Modern science is a main driver of technological innovation. The efficiency of the scientific system is of key importance to ensure the competitiveness of a nation or region. However, the scientific system that we use today was devised centuries ago and is inadequate for our current ICT-based society: the peer…

Conference: Revaluing Science in the Digital Age

Royal Society Workshop: Revaluing Science in the Digital Age, Chicheley Hall, UK Paul Groth (VU University Amsterdam) presented the Open PHACTS project

3rd Open PHACTS Community Workshop

Introducing Open PHACTS (Vienna, Austria) Co-located with the 19th EuroQSAR conference

Announcing Open PHACTS Workshop at EuroQSAR 2012

EuroQSAR 2012 in Vienna Open PHACTS Workshop “Introducing Open PHACTS” Thursday 30 August, 13:30-14:45 Presenters : L. Harland, P. Groth, C. Lemmen, L. Wich, J. Mestres, V. de la Torre This workshop will publicly present the first results of the IMI project Open PHACTS, which is producing an open, integrated…