International SWAT4LS Workshop, Semantic web applications and tools for life sciences, Edinburgh, Scotland View poster
International SWAT4LS Workshop 2013, Edinburgh, Scotland Alasdair Gray (Heriot-Watt University) View presentation
A major new source of open patent chemistry is now available, thanks to the collaboration between Digital Science and the EBI ChEMBL group. We are discussing how this data might be integrated with Open PHACTS and look forward to developing use cases in 2014.
Undergraduate students from Maastricht University in the Netherlands took part in a Programming in the Life Sciences course. The students created novel applications in six days to consume data via the Open PHACTS API.
This paper presents the rules used within the Open PHACTS (http://www.openphacts.org) Identity Management Service to compute co-reference chains across multiple datasets. The web of (linked) data has encouraged a proliferation of identifiers for the concepts captured in datasets; with each dataset using their own identifier. A key data integration challenge…
Publication: Nanopublications for exposing experimental data in the life-sciences: a Huntingtion’s Disease case study
Data from high throughput experiments often produce far more results than can ever appear in the main text or tables of a single research article. In these cases, the majority of new associations is often archived either as supplemental information in an arbitrary format or in publisher-independent databases that can…
Since its launch in January 2013 the Open PHACTS API has received over 8 million hits, and over 260 people have registered for it! If you haven’t already, sign up for your free API key now!
Manchester Informatics Big Data Community Launch, Manchester, UK Carole Goble (University of Manchester) presented Open PHACTS
Presentation: Experimental data guided docking allows to elucidate the molecular basis of drug-transporter interaction
Pharma IndoChina VIII, Ho Chi Minh City, Vietnam Gerhard Ecker (University of Vienna) View presentation
Pharma IndoChina VIII, Ho Chi Minh City, Vietnam Gerhard Ecker (University of Vienna) gave a presentation: Experimental data guided docking allows to elucidate the molecular basis of drug-transporter interaction
Open PHACTS extends a warm welcome to our new Associated Partner e-Therapeutics. A full list of Associated Partners can be found here. Find out more about how you can get involved with Open PHACTS!
Publication: Scientific requirements for the next generation semantic web-based chemogenomics and systems chemical biology molecular information system OPS
This book focuses on applications of compound library design and virtual screening to expand the bioactive chemical space, to target hopping of chemotypes to identify synergies within related drug discovery projects or to repurpose known drugs, to propose mechanism of action of compounds, or to identify off-target effects by cross-reactivity…
Autumn School of Chemoinformatics, Nara, Japan Marcus Gastreich (BioSolveIT GmbH) presented ChemBioNavigator
Presentation: WikiPathways: how open source code and open data can make omics technology more useful
Life Science Technology Event 2013, Leiden, Netherlands Chris Evelo (Maastricht University) View presentation
Life Science Technology Event 2013, Leiden, the Netherlands Chris Evelo (Maastricht University) gave a presentation: WikiPathways: how open source code and open data can make omics technology more useful
We present the Provenance, Authoring and Versioning ontology (PAV): a lightweight ontology for capturing “just enough” descriptions essential for tracking the provenance, authoring and versioning of web resources. We argue that such descriptions are essential for digital scientific content. PAV distinguishes between contributors, authors and curators of content and creators…
HandsOn: Biobanks 2013, The Hague, Netherlands Jan Velterop (AQnowledge) View presentation
HandsOn: Biobanks 2013, The Hague, the Netherlands Jan Velterop (AQnowledge) gave a presentation: The biggest problem of science: Ambiguity
EMBL-EBI Industry Programme Workshop: Computational Tools for Chemical Biology, Phenotypic Screening and Target De-convolution, Cambridgeshire, UK Bryn Williams-Jones (Connected Discovery) represented Open PHACTS
It is our pleasure to announce the official release of Target Dossier, one of the Example Applications developed within the Open PHACTS project. The Target Dossier uses the Open PHACTS Discovery Platform to answer questions of tissue expression profiles, druggability, pathways and physiological mechanisms. Drug targets can be selected and further investigated….
Publication: Generic Information Can Retrieve Known Biological Associations: Implications for Biomedical Knowledge Discovery
Weighted semantic networks built from text-mined literature can be used to retrieve known protein-protein or gene-disease associations, and have been shown to anticipate associations years before they are explicitly stated in the literature. Our text-mining system recognizes over 640,000 biomedical concepts: some are specific (i.e., names of genes or proteins)…
Biochemical Society Workshop: Tools and Strategies to Find Chemical Probes for Your Protein, London, UK Jack Gibb (Royal Society of Chemistry) View presentation
Biochemical Society Workshop: Tools and Strategies to Find Chemical Probes for Your Protein, London, UK Jack Gibb (Royal Society of Chemistry) gave a presentation: Open PHACTS Discovery Platform – Integrating pharmacological and physicochemical data
Over 80% of the publications from the Open PHACTS project are open access, available for anyone to read. A full list of our open access publications to date is below. 2013 On the formulation of performant SPARQL queries Scientific competency questions as the basis for semantically enriched open pharmacological space development…
Poster: Accessing Open PHACTS: Interactive exploration of compounds and targets from the semantic web
9th German Conference on Chemoinformatics, Fulda, Germany Katrin Stierand (University of Hamburg) View poster
9th German Conference on Chemoinformatics, Fulda, Germany Katrin Stierand (University of Hamburg) presented a poster: Accessing Open PHACTS: Interactive exploration of compounds and targets from the semantic web
The Open PHACTS API has received over 3.5 million hits since its launch in January 2013.
The recently established Open PHACTS Foundation is part of a proposal for IMI’s 9th Call: WEBAE – Leveraging Emerging Technology for Pharmacovigilance.