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Presentation: Real-World Open PHACTS Use Cases

On September 19, 2013, Posted by , In Presentations, By ,, , With No Comments

EBI Industry Workshop: Data integration and its application Lee Harland (Connected Discovery) View presentation

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,…

Publication: Encoding units and unit types in RDF using QUDT

On September 13, 2013, Posted by , In Publications, By ,,, , With No Comments

This guideline describes how units for data are preferably encoded, setting a standard that can then be handled uniformly by data consumers. Egon Willighagen Full publication: Open PHACTS Working Draft 13 September 2013

Presentation: Practical semantics in the pharmaceutical industry – the Open PHACTS project

246th ACS National Meeting & Exposition, Indianapolis, USA Antony Williams (Royal Society of Chemistry) View presentation

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…

Presentation: Open PHACTS: An Introduction

diXa Training Course: Chemical and Biological resources for Toxicology and Toxicogenomics, Cambridgeshire, UK Anna Gaulton (European Bioinformatics Institute) View presentation

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

Presentation: Opening Up Pharmacological Space: The Open PHACTS API

2013 ISMB/ECCB Conference, Berlin, Germany Chris Evelo (Maastricht University) View presentation

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

2013 ISMB/ECCB Conference, Berlin, Germany View poster

Publication: Improving data and knowledge management to better integrate health care and research

Once upon a time, several engineers, biologists and clinicians realized that a lot of information in biomedicine was partitioned into ‘silos’ that do not intercommunicate. These silos were a side effect of the existence of different disciplines required to, for example, develop new drugs. The engineers decided to dispose of the…

Presentation: The Open Pharmacological Concepts Triple Store

On July 11, 2013, Posted by , In Presentations, By , , With No Comments

Translational Knowledge Management in Pharmaceutical R&D, Brussels, Belgium Gerhard Ecker (University of Vienna) View presentation

Presentation: Mashing Up Drug Discovery: There’s an API for that

18th CICAG meeting: New Developments in Chemical Information: ‘Best Practice’, London, UK Lee Harland (Connected Discovery) View presentation

Presentation: Identifiers.org: Practical Integration tool for heterogeneous datasets

BioHackathon Symposium, Tokyo, Japan Nick Juty (EMBL-EBI) View presentation  

Presentation: The future of the science publishing ego-system

LIBER 42nd Annual Conference, Munich, Germany Jan Velterop (AQnowledge) View presentation

Presentation: Open PHACTS + KNIME: Easy access to linked pharmacology data

KNIME User Day UK 2013, London, UK Ronald Siebes (VU University Amsterdam) View presentation

Presentation: Open PHACTS: a precompetitive infrastructure for pharmacological research

Infotech 2013, London, UK Bryn Williams-Jones (Connected Discovery) View presentation

Presentation: Open PHACTS: Data integration for all

14th Annual Drug Discovery Summit, Geneva, Switzerland Andrew Leach (GlaxoSmithKline) View presentation

Publication: Scientific competency questions as the basis for semantically enriched open pharmacological space development

Molecular information systems play an important part in modern data-driven drug discovery. They do not only support decision making but also enable new discoveries via association and inference. In this review, we outline the scientific requirements identified by the Innovative Medicines Initiative (IMI) Open PHACTS consortium for the design of…

Presentation: Addressing Research Questions by Integration of Open PHACTS with Pipeline Pilot

Accelrys Solutions for Enhancing Research Innovation, Frankfurt, Germany Christian Herhaus (Merck KGaA) View presentation

Presentation: ChEMBL-RDF

On April 16, 2013, Posted by , In Presentations, By ,,,,,, , With 1 Comment

Open PHACTS Bio-Assay Ontology Workshop, Miami, USA Mark Davies (EMBL-EBI) View presentation

Presentation: ChEMBL bioassay data – Classification and data exchange

On April 16, 2013, Posted by , In Presentations, By ,,,,, , With No Comments

Bio-Assay Ontology Workshop, Miami, USA Anna Gaulton (EMBL-EBI) View presentation

Presentation: Open PHACTS: meaningful linking of preclinical drug discovery knowledge

On April 11, 2013, Posted by , In Presentations, By ,,, , With No Comments

245th ACS National Meeting & Exposition, New Orleans, USA Egon Willighagen (Maastricht University) View presentation

Poster: Collaborative curation for identifiers.org

On April 10, 2013, Posted by , In Posters, By ,, , With No Comments

Biocuration 2013 – The Conference of the International Society for Biocuration, Cambridge, UK View poster

Presentation: Enabling Drug Discovery Applications Through a Linked Data Platform

On February 27, 2013, Posted by , In Presentations, By ,,, , With No Comments

CSHALS, Conference on Semantics in Healthcare and Life Sciences, Boston, USA Alasdair Gray (Heriot-Watt University) Presentation details

Presentation: The Path to Linked Data in BioPharma

Molecular Med Tri-Con 2013, San Francisco, USA Tom Plasterer (AstraZeneca) View presentation

Publication: Human diseases through the lens of network biology

On December 7, 2012, Posted by , In Publications, By , , With No Comments

One of the challenges raised by next generation sequencing (NGS) is the identification of clinically relevant mutations among all the genetic variation found in an individual. Network biology has emerged as an integrative and systems-level approach for the interpretation of genome data in the context of health and disease. Network…

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…

Presentation: Practical Semantics In The Pharmaceutical Industry – The Open PHACTS Project

EKAW 2012: 18th International Conference on Knowledge Engineering and Knowledge Management, Galway City, Ireland Lee Harland (Connected Discovery) View presentation video Read conference paper

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…

Publication: Open PHACTS: A semantic knowledge infrastructure for public and commercial drug discovery research

Technology advances in the last decade have led to a “digital revolution” in biomedical research. Much greater volumes of data can be generated in much less time, transforming the way researchers work. Yet, for those seeking to develop new drugs to treat human disease, the task of assembling a coherent…