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Poster: Accessing Open PHACTS: Interactive exploration of compounds and targets from the semantic web

On March 20, 2014, Posted by , In Posters, By ,,,,,,,, , With Comments Off on Poster: Accessing Open PHACTS: Interactive exploration of compounds and targets from the semantic web

247th ACS National Meeting & Exposition, Dallas, USA View poster

Presentation: Accessing Open PHACTS: Interactive exploration of compounds and targets from the semantic web

On March 20, 2014, Posted by , In Presentations, By ,,,, , With Comments Off on Presentation: Accessing Open PHACTS: Interactive exploration of compounds and targets from the semantic web

Joint CINF-RSC CICAG Symposium at the 247th ACS National Meeting & Exposition, Dallas, USA Katrin Stierand (University of Hamburg) View presentation

Presentation: A Data Platform for Drug Discovery

On March 20, 2014, Posted by , In News,Presentations, By ,,, , With Comments Off on Presentation: A Data Platform for Drug Discovery

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

Conference: CINF-RSC CICAG Symposium

On March 20, 2014, Posted by , In Conferences, By ,,,,,,,,, , With Comments Off on Conference: CINF-RSC CICAG Symposium

Joint CINF-RSC CICAG Symposium at the 247th ACS National Meeting & Exposition, Dallas, USA Valery Tkachenko (Royal Society of Chemistry) represented Open PHACTS, and Katrin Stierand (University of Hamburg) gave a presentation: Accessing Open PHACTS: Interactive exploration of compounds and targets from the semantic web

2nd Open PHACTS Pipeline Pilot Hackathon held

On March 12, 2014, Posted by , In News, By ,,,,, , With Comments Off on 2nd Open PHACTS Pipeline Pilot Hackathon held

On 6 March, 2014, the 2nd Open PHACTS Pipeline Pilot Hackathon took place on the Merck campus in Darmstadt, Germany. Attendees from eight different industrial and academic institutions worked on the new version 2.0 of the Open PHACTS component collection which was provided by Accelrys through financial support by Janssen Pharmaceutica….

Open PHACTS endorses Data Citation

On March 11, 2014, Posted by , In News, By ,,,, , With Comments Off on Open PHACTS endorses Data Citation

The Joint Declaration of Data Citation Principles is the culmination of work by the Data Citation Synthesis Group of Force11, made up of a range of organisations including Creative Commons, the EBI and CERN. Open PHACTS endorses this set of principles which encourages data to be cited as an important part…

Project Meeting: Hackathon

On March 6, 2014, Posted by , In Project Meetings, By , , With Comments Off on Project Meeting: Hackathon

2nd Pipeline Pilot Hackathon (Darmstadt, Germany)

Publication: Exploiting open data: a new era in pharmacoinformatics

On March 1, 2014, Posted by , In Publications, By ,,,,, , With Comments Off on Publication: Exploiting open data: a new era in pharmacoinformatics

Within the last decade open data concepts has been gaining increasing interest in the area of drug discovery. With the launch of ChEMBL and PubChem, an enormous amount of bioactivity data was made easily accessible to the public domain. In addition, platforms that semantically integrate those data, such as the…

Poster: Answering drug-discovery research questions with Open PHACTS and KNIME

On February 28, 2014, Posted by , In Posters, By ,, , With Comments Off on Poster: Answering drug-discovery research questions with Open PHACTS and KNIME

47th Scientific training event for pharmacists,Schladming, Austria View poster

Poster: BAO Reveal: Assay Analysis Using the BioAssay Ontology and Open PHACTS

On February 28, 2014, Posted by , In Posters, By ,,,,,, , With Comments Off on Poster: BAO Reveal: Assay Analysis Using the BioAssay Ontology and Open PHACTS

CSHALS, Conference on Semantics in Healthcare and Life Sciences, Boston, USA Awarded Faculty of 1000 Poster Prize View poster

Presentation: Semantics Based Biomedical Knowledge Search

On February 28, 2014, Posted by , In Presentations, By ,,, , With Comments Off on Presentation: Semantics Based Biomedical Knowledge Search

CSHALS, Conference on Semantics in Healthcare and Life Sciences, Boston, USA Barend Mons (Leiden University Medical Centre) View presentation

Presentation: The Open PHACTS project – Progress and Future Sustainability

On February 28, 2014, Posted by , In Presentations, By ,,, , With Comments Off on Presentation: The Open PHACTS project – Progress and Future Sustainability

CSHALS, Conference on Semantics in Healthcare and Life Sciences, Boston, USA Tom Plasterer (AstraZeneca) View presentation

Conference: CSHALS 2014

On February 28, 2014, Posted by , In Conferences, By , , With Comments Off on Conference: CSHALS 2014

CSHALS, Conference on Semantics in Healthcare and Life Sciences, Boston, USA Open PHACTS representatives gave several presentations 

Utopia Documents integrates with Discovery Platform

On February 26, 2014, Posted by , In News, By ,,,,,,, , With Comments Off on Utopia Documents integrates with Discovery Platform

Utopia Documents is a free PDF reader that connects the static content of scientific articles to the dynamic world of online content and allows data to be extracted from figures and tables within the scientific literature. Interesting concepts and words can be further investigated using a variety of tools –…

Open PHACTS Explorer updated

On February 20, 2014, Posted by , In News, By , With Comments Off on Open PHACTS Explorer updated

The Open PHACTS Explorer now uses version 1.3 of the Open PHACTS API. This includes an update of the pharmacology data (from ChEMBL 13 to ChEMBL 16). Changes with this update: pChEMBL values (a unification over different activity types) are now available. They can be used to sort and filter…

Presentation: Linked Data API (LDA)

On February 6, 2014, Posted by , In Presentations, By ,, , With Comments Off on Presentation: Linked Data API (LDA)

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

Publication: Toxins in transit

On February 1, 2014, Posted by , In Publications, By ,, , With Comments Off on Publication: Toxins in transit

The Pharmacoinformatics Research Group seeks to further understanding of transporter proteins and their interactions with drugs, with a particular focus on multidrug resistance in cancer. The development of the eTOX and Open PHACTS databases should encourage greater integration of pharmacoinformatics datasets so that more efficient in silico models can be…

Open PHACTS API 1.3 released

On January 24, 2014, Posted by , In News, By , , With Comments Off on Open PHACTS API 1.3 released

We are excited to release the Open PHACTS API 1.3. Among the features are: Over 2,900 million triples New compound API calls: drug type (approved, experimental) New pharmacology API calls: pChEMBL, assay type, generic name, literature DOI/PMID, target type and component New target info API calls: ChEMBL URIs, UniProt protein-protein interactions,…

Publication: Applying Linked Data Approaches to Pharmacology: Architectural Decisions and Implementation

On January 21, 2014, Posted by , In News,Publications, By ,,,,,,,,,,,,,, , With Comments Off on 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….

Open PHACTS Newsletter 4

On January 20, 2014, Posted by , In Newsletters, By ,,,,,,, , With Comments Off on Open PHACTS Newsletter 4

Contents: The Open PHACTS Foundation has joined the project Open PHACTS API Usage Students create novel applications to use the Open PHACTS API Supporting Other Initiatives GARField and Target Dossier launched Collector released Open PHACTS user support portal 5th Community Workshop: Shaping the future of Open PHACTS New Version of…

Conference: Jointly designing a data FAIRPORT

On January 16, 2014, Posted by , In Conferences, By ,,,,,,, , With Comments Off on Conference: Jointly designing a data FAIRPORT

Jointly designing a data FAIRPORT, Leiden, the Netherlands Bryn Williams-Jones (Connected Discovery), Barend Mons (LUMC), Carole Goble (University of Manchester) and Jan Velterop (AQnowledge) represented Open PHACTS

The Open PHACTS Foundation joins the project

On January 10, 2014, Posted by , In News, By , With Comments Off on The Open PHACTS Foundation joins the project

We are pleased to announce that the Open PHACTS project’s successor organisation, the Open PHACTS Foundation, has joined the project as a partner. The Open PHACTS Foundation aims to ensure the sustainability of the Open PHACTS Discovery Platform infrastructure. Furthermore, it acts as a hub for scientific research and development relevant…

Conference: 5th Annual aDREAM Conference

On January 8, 2014, Posted by , In Conferences, By ,,,, , With Comments Off on Conference: 5th Annual aDREAM Conference

5th Development of Robust Experimental Assay Methods (aDREAM) Conference, Madison, USA Linda Zander-Balderud (AstraZeneca) gave a presentation: Applying BioAssay Ontology to facilitate HTS analysis

Presentation: Applying BioAssay Ontology to facilitate HTS analysis

On January 8, 2014, Posted by , In Presentations, By ,,,, , With Comments Off on Presentation: Applying BioAssay Ontology to facilitate HTS analysis

5th Development of Robust Experimental Assay Methods (aDREAM) Conference, Madison, USA Linda Zander-Balderud (AstraZeneca) View presentation

Collector released

On December 18, 2013, Posted by , In News, By ,,,,,,, , With Comments Off on Collector released

We are pleased to announce that Collector, developed by PSMAR (Parc de Salut Mar Barcelona) is officially released. Collector uses data from the Open PHACTS Discovery Platform and the eTOX project to build QSAR predictive models. The tool features a flexible collection of filters for selecting the target, the biological data…

Conference: ELIXIR Founding Ceremony

On December 18, 2013, Posted by , In Conferences, By ,, , With Comments Off on Conference: ELIXIR Founding Ceremony

ELIXIR Founding Ceremony and Launch Event, Brussels, Belgium Barend Mons (LUMC) referenced the Open PHACTS approach in his talk about ELIXIR and open data

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: ERCIM 2013

On December 14, 2013, Posted by , In Conferences, By ,, , With Comments Off on Conference: ERCIM 2013

ERCIM 2013, London, UK Open PHACTS participated in the 6th International Conference of the ERCIM Working Group on Computational and Methodological Statistics

Conference: SWAT4LS 2013

On December 12, 2013, Posted by , In Conferences, By ,,,,,,, , With Comments Off on Conference: SWAT4LS 2013

International SWAT4LS Workshop 2013, Edinburgh, Scotland Núria Queralt (Universitat Pompeu Fabra) presented a poster: DisGeNET RDF: A gene-disease association Linked Open Data resource Alasdair Gray (Heriot-Watt University) gave a presentation: Computing Identity Co-reference Across Drug Discovery Datasets Ian Dunlop (University of Manchester) presented a publication: Open PHACTS Explorer: Bringing the web to the semantic…

Award-winning Open PHACTS publications

Open PHACTS publications won the top two best paper awards at SWAT4LS 2013: Computing Identity Co-Reference Across Drug Discovery Datasets (Christian Y.A. Brenninkmeijer, Ian Dunlop, Carole Goble, Alasdair J.G. Gray, Steve Pettifer and Robert Stevens) Nanopublications for exposing experimental data in the life-sciences: a Huntingtion’s Disease case study (Eleni Mina, Mark…