DNAdigest interviews Open PHACTS
Open PHACTS Foundation CTO Nick Lynch recently spoke to DNAdigest about the benefits that Open PHACTS can offer researchers, as well as about the issues of limited data sharing and ethical data sharing in life sciences. You can read the full interview at DNAdigest’s website.
DisGeNET v3.0 RDF now available
DisGeNET has just announced their latest RDF release, including: More GDAs comprising 17 000 genes and more than 14 000 diseases as linked data in the Semantic Web New disease-phenotype annotation data from the Human Phenotype Ontology New linksets A new full metadata description of the dataset compliant with the…
Node.js library OPS.js now available
OPS.js is a JavaScript library you can use to fetch and parse responses from the Open PHACTS API. It is now available via the Node Package Manager which means that anyone using Node-based JavaScript applications can easily include it. It is also available as a single file download for standard…
Biological annotations in SureChEMBL
Biological patent annotations are now displayed on the SureChEMBL interface. In collaboration with Open PHACTS and SciBite, the EBI have implemented a mechanism to allow users to highlight biological entities (such as genes and diseases) within SureChEMBL patent documents. For more information see the SureChEMBL blog. This is a first step towards full integration…
ChemBioNavigator Webinar
ChemBioNavigator is a web application that was specifically designed to visualise the small-molecule and pharmacological data integrated by Open PHACTS. Last week BioSolveIT hosted a webinar showing how ChemBioNavigator can be used to: discover new target-compound interactions identify multi-target as well as target-specific compound sets retrieve small-molecule data from a variety…
Pipeline Pilot Component Collection 1.5 Released
We are pleased to announce the release of version 1.5 of the Open PHACTS component collection. There are no major changes to the components, but this version is needed to connect to version 1.5 of the Open PHACTS API, which has refreshed data and several other improvements. Version 1.5 of the Open PHACTS…
Open PHACTS API Milestone
The Open PHACTS Discovery Platform passed an exciting milestone this month of having served over 250,000,000 hits since it passed into production in 2013. Our API is averaging over 25 million hits a month, and is now at version 1.5. If you would like information about moving to API version 1.5, please get…
Open PHACTS now operational
The Open PHACTS API and other services (Explorer) have been restored early this morning. We have done some testing on this and things seem to be back to normal. Thank you for your patience during the outage. We are carrying out an analysis on the outage and will report back….
Open PHACTS temporarily unavailable
Update: Service has been restored as of 9 June 2015, with both the API and Explorer back online. Apologies for any inconvenience caused by this downtime. On Sunday 7 June our Open PHACTS & API hosting environment suffered a major hardware fault. As a result the Open PHACTS API and…
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!
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…
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…
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…
Drug Discovery Workflow Workshop: Using Open PHACTS
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…
New version of Open PHACTS Explorer released
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
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…
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
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…
Open PHACTS PLoS ONE publication
Some great examples of how Open PHACTS can help solve drug discovery problems have just been published in the open access journal PLOS ONE: The Application of the Open Pharmacological Concepts Triple Store (Open PHACTS) to Support Drug Discovery Research
Job Opportunity: OPF Technical and Strategic Coordinator
An exciting opportunity for an experienced pharma/life-science professional to join the Open PHACTS Foundation as technical strategic co-ordinator. For more information, please see the job listing.
Open PHACTS added to the OMICtools directory
Open PHACTS has been added to the OMICtools directory of resources for biomedical researchers: http://omictools.com/open-phacts-s7428.html
Human Proteome data in RDF format
We are excited that Open PHACTS team members’ experience helped make Human Proteome data available in RDF format: http://www.proteinatlas.org/about/download
Open PHACTS Foundation participates in Horizon 2020
The Open PHACTS Foundation will be participating in Big Data Europe’s Horizon 2020 project, which aims to integrate existing big data infrastructures into an extensible stack of semantically interoperable, large-scale, multi-lingual data assets. Part of the Foundation’s role will involve running pilots on services combining data and functionalities from the Open…
Open PHACTS API: 40 million hits in November
An amazing new record – over 40 million hits were recorded on the Open PHACTS API in November 2014! Find out more about the API at dev.openphacts.org,
Open PHACTS welcomes EdgeLeap as an Associated Partner
Open PHACTS extends a warm welcome to our new Associated Partner EdgeLeap. A full list of Associated Partners can be found here. Find out more about how you can get involved with Open PHACTS!
Project Milestone 6 reached
The Open PHACTS project has reached Milestone 6. The Open PHACTS Foundation has ensured the sustainability of the Open PHACTS Discovery Platform by funding secure hosting and organising ongoing technical development of the infrastructure. Read the Milestone 6 document on the project website.
Open PHACTS Foundation sponsors the ISWC2014 conference in Trentino, Italy
The Open PHACTS Foundation is a Gold Sponsor of the 13th International Semantic Web Conference, to be held 19-23 October in Trentino, Italy. The Foundation has also funded the registration of Tom De Nies, a researcher at iMinds (the former IBBT) Multimedia Lab, at the Department of Electronics and Information…