Publication: The FAIR Guiding Principles for scientific data management and stewardship
On March 12, 2016,
Posted by wordpressadmin ,
In Publications, By alasdair gray,jan velterop,chris evelo,barend mons,paul groth,carole goble,andra waagmeester,erik van mulligen,rob hooft,marco roos,erik schultes,niklas blomberg,Susanna-Assunta Sansone,Philippe Rocca-Serra,Tim Clark,Scott Edmunds,Katherine Wolstencroft,Mark Thompson,Albert Mons,anthony brookes,Jun Zhao,Michel Dumontier,Tobias Kuhn,IJsbrand Jan Aalbersberg,Gabrielle Appleton,Myles Axton,Arie Baak,Jan-Willem Boiten,Luiz Bonino da Silva Santos,mark wilkinson,philip bourne,jildau bouwman,Merce Crosas,Ingrid Dillo,Olivier Dumon,Richard Finkers,Alejandra Gonzalez-Beltran,Jeffrey Grethe,Jaap Heringa,Peter t Hoen,Ruben Kok,Joost Kok,Scott Lusher,Maryann Martone,Abel Packer,Bengt Persson,Rene van Schaik,Thierry Sengstag,Ted Slater,George Strawn,Morris Swertz,Johan van der Lei,Peter Wittenburg,scientific data , With Comments Off on 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
On February 19, 2016,
Posted by wordpressadmin ,
In Community Workshops,Conferences,Project Meetings, By alasdair gray,astrazeneca,heriot-watt,maastricht,glaxosmithkline,bryn williams-jones,gerhard ecker,vienna,european bioinformatics institute,ebi,lee harland,imi,daniela digles,barend mons,lumc,paul groth,herman van vlijmen,janssen,openlink,carole goble,stefan senger,nick lynch,ryan miller,eli lilly,lilly,nuria queralt-rosinach,ferran sanz,manchester,barbara zdrazil,Edgar Jacoby,Jean-Marc Neefs,efpia,ann martin,foundation news,scibite,psmar,elsevier,george papadatos,embl-ebi,nuria queralt,luca bartek,derek marren,emily jamieson,tareq malas,lewis mervin,joseph mullen,pierre meulien,innovative medicines initiative,innomeds,theo meert,hugh williams,strathclyde,jana gurinova,glasgow,cambridge,newcastle upon tyne,jeremy yang,indiana,dean allemang,working ontologist , With Comments Off on Linking Life Science Data: Design to Implementation, and Beyond
Open PHACTS project closing conference (Vienna, Austria)
Conference: eResearch Africa 2014
On November 26, 2014,
Posted by wordpressadmin ,
In Conferences, By barend mons,lumc,eresearch africa,eresearch africa 2014 , With Comments Off on Conference: eResearch Africa 2014
eResearch Africa 2014, Cape Town, South Africa Barend Mons (LUMC) represented Open PHACTS
Conference: RDA Fourth Plenary Meeting
On September 22, 2014,
Posted by wordpressadmin ,
In Conferences, By barend mons,rda,rda plenary,rda plenary 4,research data alliance , With Comments Off on 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
On September 2, 2014,
Posted by wordpressadmin ,
In Conferences, By barend mons,lumc,carole goble,manchester,bd2k,adds data science workshop,adds , With Comments Off on 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
On June 12, 2014,
Posted by wordpressadmin ,
In Publications, By christine chichester,barend mons,paul groth,antonis loizou,Pascale Gaudet,Oliver Karch,Lydie Lane,Amos Bairoch,web semantics,nextprot , With Comments Off on 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
On May 22, 2014,
Posted by wordpressadmin ,
In Conferences, By barend mons,terena,terena networking conference,tnc,tnc 2014 , With Comments Off on 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
On February 28, 2014,
Posted by wordpressadmin ,
In Presentations, By cshals,cshals 2014,barend mons,lumc , 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
Conference: Jointly designing a data FAIRPORT
On January 16, 2014,
Posted by wordpressadmin ,
In Conferences, By bryn williams-jones,connected discovery,jan velterop,aqnowledge,barend mons,lumc,carole goble,manchester , 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
Conference: ELIXIR Founding Ceremony
On December 18, 2013,
Posted by wordpressadmin ,
In Conferences, By barend mons,lumc,elixir , 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: Generic Information Can Retrieve Known Biological Associations: Implications for Biomedical Knowledge Discovery
On November 19, 2013,
Posted by wordpressadmin ,
In Publications, By barend mons,herman van haagen,peter-bram 't hoen,erik schultes,plos one,plos , With Comments Off on 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
On July 15, 2013,
Posted by wordpressadmin ,
In Publications, By barend mons,ferran sanz,laura furlong,Tim Clark,anthony brookes,j albanell,r b altman,r bellazzi,s boyer,a brand,s brunak,j gea,p ghazal,r graf,r guigo,t e klein,n lopez-bigas,v maojo,m musen,j l oliveira,a rowe,p ruch,a shabo,e h shortliffe,a valencia,j van der lei,m a mayer,journal of internal medicine,Montserrat Cases , With Comments Off on 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
On October 4, 2012,
Posted by wordpressadmin ,
In Publications, By barend mons,paul groth,carole goble,erik schultes,Frank van Harmelen,George Kampis,Katy Borner,Peter van den Besselaar,Stuart Anderson,Stefan Decker,Conor Hayes,Thierry Buecheler,Dirk Helbing,the european physical journal,the european physical journal special topics , With Comments Off on 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
On July 23, 2012,
Posted by wordpressadmin ,
In Publications, By barend mons,erik van mulligen,marco roos,erik schultes,human mutation,Vassiliki Gkantouna,Giannis,Tzimas,Zuotian Tatum,george patrinos,david cooper , With Comments Off on 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
On June 18, 2012,
Posted by wordpressadmin ,
In Publications, By barend mons,Richard Kidd,Raymond Dalgleish,Eva Molero,Mascha Jansen,Daniela Past,Anika Robl,Carlos Diaz,Albert Mons,anthony brookes,human mutation , With Comments Off on 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
On June 6, 2012,
Posted by wordpressadmin ,
In Publications, By gerhard ecker,chris evelo,antony williams,lee harland,christine chichester,barend mons,paul groth,carole goble,niklas blomberg,drug discovery today,Stephen Pettifer,Egon Willighagen , With Comments Off on 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
On April 16, 2012,
Posted by wordpressadmin ,
In Community Workshops, By glaxosmithkline,bryn williams-jones,connected discovery,jan velterop,aqnowledge,gerhard ecker,vienna,european bioinformatics institute,ebi,antony williams,royal society of chemistry,christine chichester,swiss institute of bioinformatics,sib,barend mons,lumc,john overington,stefan senger,Richard Kidd,community workshop,community workshop 2,tony harmar,iuphar,iuphar-db,anthony harmar , With Comments Off on 2nd Open PHACTS Community Workshop
Working with Open PHACTS (London, UK)
Conference: CSHALS 2012
On February 24, 2012,
Posted by wordpressadmin ,
In Conferences, By cshals,barend mons,lumc,nanopublication,cshals 2012 , With Comments Off on Conference: CSHALS 2012
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
On May 27, 2011,
Posted by wordpressadmin ,
In Press Releases, By bryn williams-jones,gerhard ecker,imi,barend mons,niklas blomberg,Daniela Past,Anika Robl,foundation news , With Comments Off on 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
On April 18, 2011,
Posted by wordpressadmin ,
In Publications, By bryn williams-jones,gerhard ecker,barend mons,efmc,niklas blomberg,Richard Kidd,efmc yearbook 2011 , With Comments Off on 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
On March 29, 2011,
Posted by wordpressadmin ,
In Publications, By jan velterop,christine chichester,barend mons,paul groth,herman van haagen,peter-bram 't hoen,johan den dunnen,gertjan van ommen,erik van mulligen,bharat singh,rob hooft,marco roos,joel hammond,bruce kiesel,belinda giardine,erik schultes,nature genetics , With Comments Off on 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…