Tag Archives: Linked Science

Opening Reproducible Research project is hiring

Opening Reproducible Research (ORR) project at the Institute for Geoinformatics, University of Münster, Germany has announced the following two open positions (deadline for applying October 15, 2015):

If your institute has open positions related to Open Science or Linked Science (or both!), please share news about them to us via @LinkedScience or tomi.kauppinen@aalto.fi and we will add them to LinkedScience.org/jobs.


Six papers accepted to Linked Science 2015

We are happy to announce that the following papers were accepted to this year’s Workshop on Linked Science organized at ISWC2015 in Bethlehem, Pennsylvania, USA on October 12th, 2015.

  • Tony Hammond and Michele Pasin. The nature.com ontologies portal
  • Da Huo, Jaroslaw Nabrzyski and Charles Vardeman. An Ontology Design Pattern towards Preservation of Computational Experiments
  • Carsten Keßler. Using the Web as a Data Source: Challenges for Linked Science
  • Tobias Kuhn. nanopub-java: A Java Library for Nanopublications
  • Paulo Pinheiro, Deborah McGuinness and Henrique Santos. Human-Aware Sensor Network Ontology: Semantic Support for Empirical Data Collection
  • Rui Yan, Brenda Praggastis, William Smith and Deborah McGuinness. Towards Cache Maintenance for Ontology Based, History-Aware Stream Reasoning

Announced by Tomi Kauppinen, Co-chair of the 5th Workshop on Linked Science 2015— Best Practices and the Road Ahead (LISC2015)

4th Workshop on Linked Science 2014— Making Sense Out of Data

4th Workshop on Linked Science 2014— Making Sense Out of Data (LISC2014)

We are proud to announce that we will have Dr Harith Alani from the Open University, UK as our keynote speaker for LISC2014.

Here once again the temporal and spatial coordinates for joining the Linked Science 2014 workshop:

When: October 19, 2014 (Full-day)
Where: Riva del Garda, Trentino, Italy
Collocated with the 13th International Semantic Web Conference (ISWC2014).
Workshop URI: http://linkedscience.org/events/lisc2014

You may also join remotely by following the hashtag #LISC2014.


9.15 – 9.30: Opening and introduction

9.30 – 10.30: Keynote: Harith Alani (Open University)

10:30 – 11:00 Coffee break

11:00 – 12:20: Paper presentation session I: Making sense out of scholarly data

11:00 – 11:20 Hajar Ghaem Sigarchian, Ben De Meester, Tom De Nies, Ruben Verborgh, Wesley De Neve, Erik Mannens and Rik Van de Walle. EPUB3 for Integrated and Customizable Representation of a Scientific Publication and its Associated Resources

11:20 – 11:40 Angelo Di Iorio, Silvio Peroni, Fabio Vitali and Jacopo Zingoni. Semantic lenses to bring digital and semantic publishing together

11:40 – 12:00 Francesco Osborne, Silvio Peroni and Enrico Motta. Clustering Citation Distributions for Semantic Categorization and Citation Prediction

12:00 – 12:20 Olga Giraldo, Alexander Garcia and Oscar Corcho. SMART Protocols: SeMAntic RepresenTation for Experimental Protocols

12:30 – 14:00 Lunch

14:00 – 15:30 Paper presentation session II: Modelling Scientific Data

14:00 – 14:20 Laleh Kazemzadeh, Maulik Kamdar, Oya Beyan, Stefan Decker and Frank Barry. LinkedPPI: Enabling Intuitive, Integrative Protein-Protein Interaction Discovery

14:20 – 14:40 Jodi Schneider, Paolo Ciccarese, Tim Clark and Richard D. Boyce. Using the Micropublications ontology and the Open Annotation Data Model to represent evidence within a drug-drug interaction knowledge base

14:40 – 15:00 Simon Jupp, James Malone and Alasdair J. G. Gray. Capturing Provenance for a Linkset of Convenience

15:00 – 15:20 Evan Patton and Deborah McGuinness. Connecting Science Data Using Semantics and Information Extraction

15:20 – 16:00 coffee break

16:00 – 17:30 Co-writing session: how can linked science techniques help with ‘sense making out of (scientific) data’ 2+45 minutes

  • 1st 45 minutes: produce linked science matrix in breakout groups, correlating sense-making challenges and technologies used to address these challenges

  • 2nd 45 minutes: merging matrices into consensus view and/or paper ideas/blog post, by identifying common challenges, technology bridges and/or gaps


Visualizing and Animating Large-scale Spatiotemporal Data with ELBAR Explorer

Visual exploration of data enables users and analysts observe interesting patterns that can trigger new research for further investigation. With the increasing availability of Linked Data, facilitating support for making sense of the data via visual exploration tools for hypothesis generation is critical. Time and space play important roles in this because of their ability to illustrate dynamicity, from a spatial context. Yet, Linked Data visualization approaches typically have not made efficient use of time and space together, apart from typical rather static multivisualization approaches and mashups. We developed ELBAR explorer that visualizes a vast amount of scientific observational data about the Brazilian Amazon Rainforest. The core contribution is a novel mechanism for animating between the different observed values, thus illustrating the observed changes themselves.

ELBAR-explorer will be demoed at ISWC2014 in October, 2014. The following paper will give more details:

Tutorial on Information Visualization for Innovating Research Methods at Spatial Cognition 2014

We will organize a Tutorial on Information Visualization for Innovating Research Methods at Spatial Cognition 2014 (SC2014)  conference in Bremen on September 15th, 2014. The teachers of the tutorial are Tomi Kauppinen (Cognitive Systems Group, University of Bremen) and Willem van Hage (SynerScope B.V.).

In the tutorial we will introduce visual approaches for investigating spatial data in the context of other dimensions (such as social or temporal). The goal is to show via examples how information visualization, exploration and interaction support innovating new research methods. The tutorial materials will be made available online at LinkedScience.org/tutorials.

The main tutorial exercises will be done within the morning of the tutorial day.  For the afternoon there is an optional session for studying how to apply visual analytics techniques to data brought by participants.

Thus while the focus of hands-on exercises of the morning session is in existing case examples the optional afternoon session is more about brainstorming and exchanging ideas about suitable methods for the data from the participants.

Register to SC2014 and tutorial today here.

Nine Papers Accepted for the Linked Science 2012

We are pleased to announce that we accepted the following papers for publication and presentation at the 2nd International Workshop on Linked Science 2012—Tackling Big Data (LISC2012):

The selection process was competitive with the acceptance rate of 47%: we received 19 submissions and accepted these 9 papers.

The 2nd International Workshop on Linked Science 2012—Tackling Big Data (LISC2012) will be held within the 11th International Semantic Web Conference (ISWC2012) in Boston, USA on November 12th, 2012.

The more detailed workshop programme will be announced in September at the workshop web pages at LinkedScience.org/events/lisc2012/ and via twitter hashtag  #LISC2012 and twitter feed @LinkedScience.


Tutorial on Linked Science at EKAW2012

Tutorial on Linked Science 2012 (TOLSCI2012)

When: October 7th, 2012
Where: Galway City, Ireland
Tutorial at the International Conference on Knowledge Engineering and Knowledge Management (EKAW 2012)

Tutorial URI: http://linkedscience.org/events/tolsci2012/

Linked Science is an approach to interconnect scientific assets in order to enable transparent, reproducible and transdisciplinary research. Tutorial on Linked Science 2012 (TOLSCI2012) will be a half day tutorial comprising of different aspects of Linked Science: semantic description of scientific data (e.g. observations and measurements), existing vocabularies, bridging of statistical analysis and Linked Data, and license and copyright issues about data.

Through exercises and the introductory talk the aim of TOLSCI2012 is to stimulate transdisciplinary discussions among researchers and publishers from various backgrounds on semantic integration of scientific information.

The main part of the tutorial will concentrate in a hands-on session in order to learn how to describe, access and analyze scientific data about scientific observations, and especially how to get only that part of data which is of interest for a given research question.

We will teach

  • how Linked Data solves the access part, and
  • how SPARQL allows to query only a subset of the data.

In particular, the participants will learn in a hands-on session

  • how Linked Data can be connected with the help of the SPARQL package for statistical analysis in R, and
  • how and which visualization techniques and tools are available for interacting with the data.

All tutorial materials will be published online.

To register, visit: http://ekaw2012.ekaw.org/Registration.html


  • Tomi Kauppinen is a postdoctoral researcher in the Muenster Semantic Interoperability Lab (MUSIL) at the Institute for Geoinformatics at the University of Muenster, Germany. He holds a PhD from the Aalto University, Finland with a thesis on reasoning about change and time. He chaired the First International Workshop on Linked Science 2011 at the International Semantic Web Conference (ISWC2011), the track on Interoperability and Semantics of the Geoinformatik 2011 conference, and led the breakout session for Vocabularies for Science at Science Online London 2011 organized by Nature. His research focuses on spatiotemporal and semantic modeling of processes such as deforestation, extreme weather events, changes in administrational borders, digital cultural heritage, and linked science. His current projects include opening and linking of scientific and educational data in LinkedScience.org-project and in the Linked Open Data University of Muenster (LODUM). He coordinates activities as a post-doc in the International Research Training Group on Semantic Integration of Geospatial Information.
  • Willem Robert van Hage is a researcher in the field of information integration on the web. His main research topics in the past years are geospatio-temporal semantics, ontology alignment, and ontology learning. He is a co-organizer of the Detection, Representation, and Exploitation of Events in the Semantic Web workshop (DeRiVE 2011) and since 2006 he has been a co-organizer of the Ontology Alignment Evaluation Initiative (OAEI), a collaborative benchmarking effort for the evaluation of on- tology alignment techniques. He has led the development of the Simple Event Model (SEM), an ontology for the description of events. In the past years he has worked on the combination of Semantic Web reasoning (RDF(S), OWL) and geospatio-temporal reasoning, developing a spatiotemporal indexing package for the popular SWI-Prolog programming language, which has led to a best paper award at the EKAW 2010 conference, and Semantic Web packages for SPARQL querying and RDF storage for the R statistical programming language. He is the coordinator of the interfaculty Web Science minor at the VU University Amsterdam.

Demo and Poster today @ESWC2012

Today on May 29th a poster and a demo will be presented at the 9th Extended Semantic Web Conference (ESWC2012) related to Linked Science and LODUM projects. The poster and the demo will be presented next to each other at the Posters and Demos session for your convenience.

The poster

is about  Sharing and Analyzing Remote Sensing Observation Data for Linked Science and presents the Linked Brazilian Amazon Rainforest project. Below is a figure illustrating how to interact with these large amounts of Linked Spatiotemporal Data to support understanding of the ecological, social and economical dimensions of sustainable development. For more information see also the Triangle of Sustainability project.


The demo

is about the Linked Open Data University of Münster – Infrastructure and Applications (see also the data portal)The idea is to open up the university’s data silos, integrate the data, and make it easy to build applications on top of the data collection. The productivity map shown as a video below is an example of such an application. It renders the university buildings in 3D—the building height indicates the number of publications written by researchers working in the respective building. The KML file is also available for download—just open it up in Google Earth to explore the productivity map.


2nd International Workshop on Linked Science 2012—Tackling Big Data will be arranged in Boston, USA

The 2nd International Workshop on Linked Science 2012—Tackling Big Data (LISC2012) will be organized in November, 2012 in Boston, USA.

LISC2012 will be collocated with the 11th International Semantic Web Conference (ISWC2012). The submission deadline for the papers is July 31th, 2012.

Organizers of LISC2012 are

  • Tomi Kauppinen, Institute for Geoinformatics, University of Muenster, Germany. (co-chair)
  • Line C. Pouchard, Scientific Data Group, Oak Ridge National Laboratory, US Department of Energy, USA. (co-chair)
  • Carsten Keßler, Institute for Geoinformatics (ifgi), University of Muenster, Germany. (co-chair)
  • Paul Groth, VU University of Amsterdam, the Netherlands.
  • Natasha Noy, Stanford Medical Informatics, USA
  • Eric G. Stephan, U.S. Department of Energy, Pacific Northwest National Laboratory in Richland, Washington, USA
  • Jun Zhao, Life Science Interface, University of Oxford

More information is now available at the web page of the LISC2012 at LinkedScience.org/events/lisc2012.

You may also follow the twitter feed @LinkedScience and hashtag #LISC2012 for announcements and discussions.


Demo and poster at ESWC2012

There will be a poster and a demo presented at the 9th Extended Semantic Web Conference (ESWC2012) related to Linked Science and LODUM projects:


Linked Open University of Muenster (LODUM) productivity map