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Open PHACTS Newsletter 7

Contents: Open PHACTS Discovery Platform Updates Open PHACTS Pipeline Pilot Collection 1.4 Open PHACTS Explorer 2.0 View newsletter Sign up for the Open PHACTS Newsletter

First Big Data Europe workshop complete

As a funded partner of the Big Data Europe project, the Open PHACTS Foundation played a key role in the first BDE Community Workshop, which focussed on the health and demographic change societal challenge. A full report will be released soon; in the meantime Bryn Williams-Jones has written a preview of the…

Open PHACTS API version 1.5 is here!

On May 28, 2015, Posted by , In News, By ,,,, , With No Comments

We’ve been working hard to update and improve the Open PHACTS Discovery Platform, and are excited to report that version 1.5 of the Open PHACTS API is now live for public use. Try out the updated API now See the full release notes at our support portal This marks the…

Open PHACTS Drug Discovery Workflow Workshop

Drug Discovery Workflow Workshop: Using Open PHACTS (Amsterdam, the Netherlands)

Big Data Europe Workshop: Big Data in the Health Sector

As a funded partner of the Big Data Europe project, the Open PHACTS Foundation will be helping facilitate a workshop on big data in the health sector this 21 May, 2015. This workshop will provide a key opportunity for stakeholders in the health sector to influence the design of Big…

Open PHACTS – a story through publications

With all that Open PHACTS has achieved in the past few years, it can be hard to keep track of everything! Paul Groth has put together a post summarising the story of Open PHACTS to date, with links to publications demonstrating the various successes of the project: I was proud…

Project Meeting: Open PHACTS SureChEMBL & ChEMBL meet up

On April 30, 2015, Posted by , In Project Meetings, By , , With No Comments

Open PHACTS SureChEMBL & ChEMBL meet up (Cambridge, UK)

Presentation: The Open PHACTS Discovery Platform – Semantic Data Integration for Life Sciences

Swedish Linked Data Network Meet-up, Gothenburg, Sweden Ola Engkvist (AstraZeneca) Watch presentation video | View presentation slides

Conference: Swedish Linked Data Network Meet-up

Swedish Linked Data Network Meet-up, Gothenburg, Sweden Ola Engkvist (AstraZeneca) gave a presentation: The Open PHACTS Discovery Platform – Semantic Data Integration for Life Sciences

Poster: Biological Interactions Types for WikiPathways

HARMONY 2015, Wittenberg, Germany View poster

Conference: HARMONY 2015

HARMONY 2015, Wittenberg, Germany Ryan Miller (Maastricht University) presented a poster: Biological Interactions Types for WikiPathways 

Presentation: The Open PHACTS Foundation: building open semantic data services for life sciences

Bio-IT World Conference & Expo 2015, Boston, USA Bryn Williams-Jones (Open PHACTS Foundation) View presentation

Conference: Bio-IT World Conference & Expo 2015

Bio-IT World Conference & Expo 2015, Boston, USA Bryn Williams-Jones (Open PHACTS Foundation) gave a presentation: The Open PHACTS Foundation: building open semantic data services for life sciences

Conference: Pistoia Alliance Spring Conference 2015

Pistoia Alliance Spring Conference 2015, Dübendorf, Switzerland Nick Lynch (Open PHACTS Foundation) gave a presentation: The Open PHACTS Discovery Platform – Collaborations in Semantic Data Integration for Life Sciences

Publication: DisGeNET: a discovery platform for the dynamical exploration of human diseases and their genes

DisGeNET is a comprehensive discovery platform designed to address a variety of questions concerning the genetic underpinning of human diseases. DisGeNET contains over 380 000 associations between >16 000 genes and 13 000 diseases, which makes it one of the largest repositories currently available of its kind. DisGeNET integrates expert-curated databases with…

New Pipeline Pilot Components and Workshop

We are pleased to announce the release of Version 1.4 of the Open PHACTS Pipeline Pilot Components. More details can be found in the release notes. Many thanks go to Biovia for supporting the development of these components. To help users familiarise themselves with the Pipeline Pilot collection and other…

Presentation: The Open PHACTS Discovery Platform – Collaborations in Semantic Data Integration for Life Sciences

Pistoia Alliance Spring Conference 2015, Dübendorf, Switzerland Nick Lynch (Open PHACTS Foundation) View presentation

Publication: Publishing DisGeNET as Nanopublications

The increasing and unprecedented publication rate in the biomedical field is a major bottleneck for discovery in Life Sciences. Although the scientific community is limited an inability to manually curate facts from published papers, recent approaches enable the automatic, scalable and reliable extraction of assertions from the scientific literature. While…

Drug Discovery Workflow Workshop: Using Open PHACTS

On March 24, 2015, Posted by , In News, By , , With No Comments

Users of Pipeline Pilot and KNIME workflow tools are invited to participate in a workshop this 19-20 May, at VU University in Amsterdam. This will be a small, informal workshop to introduce users to how the Open PHACTS API can help answer scientific questions. There will be no cost to…

Open PHACTS Newsletter 6

Contents: Open PHACTS Explorer v2.0 Open PHACTS Website Refresh Open PHACTS Travel Grants Decommissioning API version 1.3 Open PHACTS Phenotypic Screening Workshop Big Data Europe Publications The Open PHACTS Foundation View newsletter Sign up for the Open PHACTS Newsletter

New version of Open PHACTS Explorer released

On March 3, 2015, Posted by , In News, By , With No Comments

We are delighted to announce the release of a new version of the Open PHACTS Explorer, including a completely new user interface, new data sources, mobile compatibility and the ability for users to favourite entities. Try it out now at explorer2.openphacts.org – or for an overview and introduction, take a look…

Open PHACTS Travel Grants

On March 3, 2015, Posted by , In News, By , , With No Comments

The Open PHACTS Foundation now offers young scientists the opportunity to apply for a travel grant to present scientific use cases and innovative technological solutions connected to the Open PHACTS project. Principally, the grants are for PhD students and early PostDocs who want to present results obtained using the Open…

Conference: Österreichische Apothekerkammer 47th Scientific training event

Österreichische Apothekerkammer 47th Scientific training event for pharmacists, Schladming, Austria Daniela Digles (University of Vienna) presented a poster: Answering drug-discovery research questions with Open PHACTS and KNIME

Poster: Drug Discovery FAQ: Open PHACTS API and KNIME have the answers!

8th KNIME User Group Meeting and Workshops, Berlin, Germany View poster

Conference: 8th KNIME User Group Meeting and Workshops

8th KNIME User Group Meeting and Workshops, Berlin, Germany Christine Chichester (Swiss Institute of Bioinformatics) presented a poster: Drug Discovery FAQ: Open PHACTS API and KNIME have the answers!

Presentation: The Open PHACTS Discovery Platform – Semantic Data Integration for Life Sciences

57th NFAIS Annual Conference, Crystal City, USA Tim Clark (Scientific Advisory Board) View presentation  

Conference: 57th NFAIS Annual Conference

NFAIS Annual Conference, Crystal City, USA Tim Clark (Scientific Advisory Board) gave a presentation: The Open PHACTS Discovery Platform – Semantic Data Integration for Life Sciences

Publication: Extraction of relations between genes and diseases from text and large-scale data analysis: implications for translational research

Background Current biomedical research needs to leverage and exploit the large amount of information reported in scientific publications. Automated text mining approaches, in particular those aimed at finding relationships between entities, are key for identification of actionable knowledge from free text repositories. We present the BeFree system aimed at identifying…

Open PHACTS Phenotypic Screening Workshop

On 16-17 February, 2015, Open PHACTS successfully held a workshop in Santiago de Compostela (Spain) entitled “Understanding the knowledge management needs of phenotypic screening”. Read about the workshop and its outcomes

Open PHACTS New Releases and API v1.3 decommission

On February 19, 2015, Posted by , In News, By , , With No Comments

This quarter we are planning new releases in Open PHACTS including updates to our API (version 1.4), new functionality and new data. We will release more information about this soon. As part of these plans, we will be decommissioning an older API, version 1.3. This version will be switched off by the…