Publication: The FAIR Guiding Principles for scientific data management and stewardship

There is an urgent need to improve the infrastructure supporting the reuse of scholarly data. A diverse set of stakeholders—representing academia, industry, funding agencies, and scholarly publishers—have come together to design and jointly endorse a concise and measureable set of principles that we refer to as the FAIR Data Principles….

Linking Life Science Data: Design to Implementation, and Beyond

Open PHACTS project closing conference (Vienna, Austria)

Conference: eResearch Africa 2014

eResearch Africa 2014, Cape Town, South Africa Barend Mons (LUMC) represented Open PHACTS

Conference: RDA Fourth Plenary Meeting

Research Data Alliance Fourth Plenary Meeting, Amsterdam, the Netherlands Barend Mons (LUMC) gave the opening keynote: Bringing Data to Broadway

Conference: ADDS Data Science Workshop

BD2K ADDS Data Science Workshop, Bethesda, USA Barend Mons (LUMC) and Carole Goble (University of Manchester) represented Open PHACTS

Publication: Querying neXtProt nanopublications and their value for insights on sequence variants and tissue expression

Understanding how genetic differences between individuals impact the regulation, expression, and ultimately function of proteins is an important step toward realizing the promise of personal medicine. There are several technical barriers hindering the transition of biological knowledge into the applications relevant to precision medicine. One important challenge for data integration…

Conference: TNC2014

TNC2014, the TERENA Networking Conference, Dublin, Ireland Barend Mons (Netherlands Bioinformatics Centre) gave a keynote and a presentation on Open PHACTS

Presentation: Semantics Based Biomedical Knowledge Search

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

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

Conference: ELIXIR Founding Ceremony

On December 18, 2013, Posted by , In Conferences, By ,, , With No Comments

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: 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)…

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…

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: Microattribution and nanopublication as means to incentivize the placement of human genome variation data into the public domain

The advances in bioinformatics required to annotate human genomic variants and to place them in public data repositories have not kept pace with their discovery. Moreover, a law of diminishing returns has begun to operate both in terms of data publication and submission. Although the continued deposition of such data…

Publication: Solving Bottlenecks in Data Sharing in the Life Sciences

The joint Open PHACTS/GEN2PHEN workshop on “Solving Bottlenecks in Data Sharing in the Life Sciences” was held in Volendam, the Netherlands, on September 19 and 20, 2011, and was attended by representatives from academia, industry, publishing, and funding agencies. The aim of the workshop was to explore the issues that…

Publication: Open PHACTS: Semantic interoperability for drug discovery

Open PHACTS is a public–private partnership between academia, publishers, small and medium sized enterprises and pharmaceutical companies. The goal of the project is to deliver and sustain an ‘open pharmacological space’ using and enhancing state-of-the-art semantic web standards and technologies. It is focused on practical and robust applications to solve…

2nd Open PHACTS Community Workshop

Working with Open PHACTS (London, UK)

Conference: CSHALS 2012

On February 24, 2012, Posted by , In Conferences, By ,,,, , With No Comments

CSHALS, Conference on Semantics in Healthcare and Life Sciences, Boston, USA Barend Mons (LUMC) gave a presentation: E-Science Dictates E-Publication: Nanopublications as a Substrate for In-silico Knowledge Discovery

Press Release: Semantic ‘lego’: an information framework to drive drug discovery

(PDF) Vienna, Austria – A new consortium of European organisations unite to support next generation drug discovery by providing a single view across data sources, bringing the semantic web to drug discovery. The Open PHACTS consortium, funded by the Innovative Medicines Initiative, will reduce the barriers to drug discovery by applying semantic…

Publication: Knowledge Driven Drug Discovery goes Semantic

While the availability of freely accessible information sources relevant to medicinal chemistry and drug discovery has grown over the past few years, the knowledge management challenges of this data have also grown enormously: how to get consistent answers, how to manage different interfaces, how to judge data quality, and how…

Publication: The Value of Data

Data citation and the derivation of semantic constructs directly from datasets have now both found their place in scientific communication. The social challenge facing us is to maintain the value of traditional narrative publications and their relationship to the datasets they report upon while at the same time developing appropriate…