Tentative programme
Location:
Piet Borst Auditorium (PBA), Netherlands Cancer Institute in Amsterdam
Jump to:
Tutorials
Conference day one
Conference day two
Accepted poster
Hackathon
Tentative programme day one, 6th December
| Time | Title | Type | Chair |
|---|---|---|---|
| 08:30 | Registration & coffee/tea – Foyer | ||
| 09:00 | Welcome | ||
| 09:10 | Drug Discovery and Big Linked Data – Ronald Siebes, Victor de Boer, Bryn Williams-Jones and Stian Soiland-Reyes. | Flash | |
| 09:15 | Umaka-Yummy Data: A Place to Facilitate Communication between Data Providers and Consumers – Yasunori Yamamoto, Atsuko Yamaguchi and Andrea Splendiani. | Flash | |
| 09:20 | Semantic Web technologies for a knowledge base of biomedical facts extracted from scientific literature – Valentin Grouès, Maria Biryukov, Christophe Trefois and Venkata Satagopam. | Flash | |
| 09:25 | Linking Wikidata to the rest of the Semantic Web – Andra Waagmeester, Egon Willighagen, Núria Queralt Rosinach, Elvira Mitraka, Sebastian Burgstaller-Muehlbacher, Tim E Putman, Julia Turner, Lynn M Schriml, Paul Pavlidis, Andrew I Su and Benjamin M Good. | Flash | |
| 09:30 | Scaling out ETL queries for Life Science data in production – Dieter De Witte, Laurens De Vocht, Kenny Knecht, Filip Pattyn, Hans Constandt, Erik Mannens and Ruben Verborgh. | Long | |
| 09:50 | Ontologies Guidelines and Evaluation of Ontologies Mapping Tools and Algorithms – Ian Harrow, Martin Romacker, Andrea Splendiani, Stefan Negru, Peter Woollard, Scott Markel, Yasmin Alam-Faruque, Martin Koch, Erfan Younesi, James Malone and Ernesto Jimenez-Ruiz. | Flash | |
| 09:55 | Finding drugs with common downstream effects, using direction information in biological pathways – Ryan Miller, Jonathan Melius, Nuno Nunes, Egon Willighagen, Peter Woollard and Chris Evelo. | Flash | |
| 10:00 | SPARQL Query Construction with Monitoring Service for Endpoints – Atsuko Yamaguchi, Yasunori Yamamoto, Kouji Kozaki, Kai Lenz, Hiroshi Masuya and Norio Kobayashi. | Flash | |
| 10:05 |
Updates from the EMBL-EBI RDF platform – Thomas Liener, Tony Burdett and Simon Jupp. |
Flash | |
| 10:10 | FLOPO An Ontology for the Integration of Trait Data from Digitized Floras and Plant Image Collections – Claus Weiland, Robert Hoehndorf, George Gosline, Quentin Groom, Thomas Hamann and Marco Schmidt. | Flash | |
| 10:15 | HL7 FHIR and Schema.org – Harold Solbrig, Eric Prud’Hommeaux and Guoqian Jiang. | Flash | |
| 10:20 | Answering scientific questions with linked European nanosafety data – Egon Willighagen, Micha Rautenberg, Georgios Drakakis, Haralambos Sarimveis, Christoph Helma and Nina Jeliazkova. | Flash | |
| 10:25 | Ontology-based reflective Iot middleware-enabled agriculture decision support system – Tommaso Di Noia, Marina Mongiello, Francesco Nocera and Eugenio Di Sciascio | Flash | |
| 10:30 | Break – Foyer | ||
| 11:00 | Registries of domain-relevant semantic reference models help bootstrap interoperability in domains with fragmented data resources – Marco Roos, Mark Wilkinson, Rajaram Kaliyaperumal, Mark Thompson, Claudio Carta, Ronald Cornet, David van Enckevort and Luiz Olavo Bonino Da Silva Santos. | Long | |
| 11:20 | The organisation of Bring Your Own Data (BYOD) workshops to make life science data linkable at the source – Mascha Jansen, Claudio Carta, Marco Roos and Luiz Olavo Bonino Da Silva Santos. | Flash | |
| 11:25 | Semantic linking and integration of researchers and research organizations in DISQOVER – Filip Pattyn, Steven Vandeschaeve, Stijn Vermaere, Paulo Van Huffel, Kenny Knecht and Hans Constandt. | Flash | |
| 11:30 | A poster about a new graph-based taxonomy RESTful data service – Leyla Jael García Castro, Leonardo Gonzales and Maria Martin. | Flash | |
| 11:35 | AgroLD indexing tools with ontological annotations – Stella Zevio, Nordine El Hassouni, Manuel Ruiz and Pierre Larmande. | Flash | |
| 11:40 | Semantic and Interoperability in a Reporting System for Infectious Disease Control – Olga Streibel and Göran Kirchner. | Flash | |
| 11:45 | Lunch & poster presentations – Foyer | ||
| 13:30 | Keynote lecture by Amos Bairoch, Transitioning from textual to semantic biocuration, current efforts and perspectives | Key | |
| 14:20 | Progressive Data Integration and Semantic Enrichment Based on LinkedScales and Trails – Matheus Silva Mota, Fagner Pantoja, Julio Cesar Dos Reis and André Santanchè. | Long | |
| 14:40 | MuEVo, a breast cancer Consumer Health Vocabulary built out of web forums – Solène Eholié, Mike Donald Tapi Nzali, Sandra Bringay and Clement Jonquet. | Long | |
| 15:00 | Break – Foyer | ||
| 15:30 | Studying the Cohesion Evolution of Genes Related to Chronic Lymphocytic Leukemia Using Semantic Similarity in Gene Ontology and Self-Organizing Maps – Efstratios Kontopoulos, Theodoros Moysiadis, Maria Tsagiopoulou, Sándor Darányi, Peter Wittek, Nikos Papakonstantinou, Stavroula Ntoufa, Georgios Meditskos, Yiannis Kompatsiaris and Kostas Stamatopoulos | Long | |
| 15:50 | SCRY: extending SPARQL with custom data processing methods for the life sciences – Bas Stringer, Albert Meroño-Peñuela, Sanne Abeln, Frank Van Harmelen and Jaap Heringa. | Long | |
| 16:10 | Slim-o-matic: a semi-automated way to generate Gene Ontology slims – Melanie Courtot, Alex Mitchell, Maxim Scheremetjew, Janet Piñero, Laura I. Furlong, Robert D. Finn and Helen Parkinson. | Short | |
| 16:20 | Keynote lecture by Martin Hofmann-Apitius, BioMedical Semantics at Work: The AETIONOMY Project | Key | |
| 17:10 | Close | ||
| 17:15 | Bus to boat embarcation | ||
| 18:00 | Boat past Amsterdam Light Festival to restaurant. Read more. | ||
| 19:30 | Conference dinner |
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Tentative programme day two, 7th December
| Time | Title | Type | Chair |
|---|---|---|---|
| 08:45 | Registration & coffee/tea – Foyer | ||
| 09:15 | Welcome | ||
| 09:25 | Making Linked Data SPARQL with the InterMine Biological Data Warehouse – Maxime Déraspe, Gail Binkley, Daniela Butano, Matthew Chadwick, J. Michael Cherry, Justin Clark-Casey, Sergio Contrino, Jacques Corbeil, Josh Heimbach, Kalpana Karra, Rachel Lyne, Julie Sullivan, Yo Yehudi, Gos Micklem and Michel Dumontier | Long | |
| 09:45 | Ontology Learning with Deep Learning: a case study on Patient Safety using PubMed – Mercedes Arguello Casteleiro, Maria Jesus Fernandez-Prieto, George Demetriou, Nava Maroto, Warren Read, Diego Maseda Fernandez, Jose Julio Des Diz, Goran Nenadic, John Keane and Robert Stevens. | Long | |
| 10:05 | A RDF Based Semantic Approach to Model Temporal Relations in Health Records – Oya Beyan and Stefan Decker. | Short | |
| 10:15 | Towards the Creation of the Cardiovascular Magnetic Resonance Quality Assessment Ontology (CMR-QA) – Ernesto Jimenez-Ruiz, Valentina Carapella, Elena Lukaschuk, Nay Aung, Kenneth Fung, Jose Paiva, Mihir Sanghvi, Stefan Neubauer, Steffen Petersen, Ian Horrocks and Stefan Piechnik. | Short | |
| 10:25 | WHO Drug as Linked Data – Magnus Wallberg | Flash | |
| 10:30 | Break – Foyer | ||
| 11:00 | Case Report Form based on semantic Web technologies – Angel Esteban-Gil and Jesualdo Tomás Fernández-Breis. | Long | |
| 11:20 | Discovering Information from an Integrated Graph Database – Erik van Mulligen, Wytze Vlietstra, Rein Vos and Jan Kors. | Long | |
| 11:40 | SWISH for prototyping Clinical Guideline Interactions Theory – Veruska Zamborlini, Jan Wielemaker, Marcos Da Silveira, Cédric Pruski, Annette Ten Teije and Frank Van Harmelen. | Long | |
| 12:00 | Lunch & poster presentations – Foyer | ||
| 13:30 | Keynote lecture by Dietrich Rebholz-Schuhmann, Semantics driven big data analytics: Ongoing work for cancer genomics | Key | |
| 14:20 | Understanding the Behaviour of Complex Biomolecular Networks by Combining Logical and Semantic Modeling – Ali Ayadi, Cecilia Zanni-Merk and Franc ̧ois de Bertrand de Beuvron. | Long | |
| 14:40 | Web Service APIs for Scribe Registrars, Nexus Diristries, PORTAL Registries and DOORS Directories in the NPD System – Adam Craig, Seung-Ho Bae, Teja Veeramacheneni, Koby Taswell and Carl Taswell. | Short | |
| 14:50 | Easy-to-use semantic search of pharmacological data – Guillermo Vega-Gorgojo and Laura Slaughter | Short | |
| 15:00 | Break – Foyer | ||
| 15:30 | Semantic PACS – Concept, Benefit and Implementation illustrated by SeDI – Peter Feltens, SOHARD Software GmbH | Industry | |
| 15:50 | Semantic DICOM clinical applications – Tomas Janssen | Industry | |
| 16:10 | Ontology-Driven Context Interpretation and Conflict Resolution in Dialogue-Based Home Care Assistance – Georgios Meditskos, Efstratios Kontopoulos, Stefanos Vrochidis and Yiannis Kompatsiaris. | Short | |
| 16:20 | Capturing the relationship between evolving biomedical concepts via background knowledge – Cédric Pruski, Julio Cesar Dos Reis and Marcos Da Silveira. | Long | |
| 16:40 | Semantic Web in Industry | Panel | |
| 17:00 | Close |
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Accepted Posters
- Updates from the EMBL-EBI RDF platform – Thomas Liener, Tony Burdett and Simon Jupp.
- FLOPO An Ontology for the Integration of Trait Data from Digitized Floras and Plant Image Collections – Claus Weiland, Robert Hoehndorf, George Gosline, Quentin Groom, Thomas Hamann and Marco Schmidt.
- HL7 FHIR and Schema.org – Harold Solbrig, Eric Prud’Hommeaux and Guoqian Jiang.
- Answering scientific questions with linked European nanosafety data – Egon Willighagen, Micha Rautenberg, Georgios Drakakis, Haralambos Sarimveis, Christoph Helma and Nina Jeliazkova.
- A poster about a new graph-based taxonomy RESTful data service – Leyla Jael García Castro, Leonardo Gonzales and Maria Martin.
- AgroLD indexing tools with ontological annotations – Stella Zevio, Nordine El Hassouni, Manuel Ruiz and Pierre Larmande.
- Ontologies Guidelines and Evaluation of Ontologies Mapping Tools and Algorithms – Ian Harrow, Martin Romacker, Andrea Splendiani, Stefan Negru, Peter Woollard, Scott Markel, Yasmin Alam-Faruque, Martin Koch, Erfan Younesi, James Malone and Ernesto Jimenez-Ruiz.
- Finding drugs with common downstream effects, using direction information in biological pathways – Ryan Miller, Jonathan Melius, Nuno Nunes, Egon Willighagen, Peter Woollard and Chris Evelo.
- SPARQL Query Construction with Monitoring Service for Endpoints – Atsuko Yamaguchi, Yasunori Yamamoto, Kouji Kozaki, Kai Lenz, Hiroshi Masuya and Norio Kobayashi.
- The organisation of Bring Your Own Data (BYOD) workshops to make life science data linkable at the source – Mascha Jansen, Claudio Carta, Marco Roos and Luiz Olavo Bonino Da Silva Santos.
- Semantic linking and integration of researchers and research organizations in DISQOVER – Filip Pattyn, Steven Vandeschaeve, Stijn Vermaere, Paulo Van Huffel, Kenny Knecht and Hans Constandt.
- Drug Discovery and Big Linked Data – Ronald Siebes, Victor de Boer, Bryn Williams-Jones and Stian Soiland-Reyes.
- Semantic Web technologies for a knowledge base of biomedical facts extracted from scientific literature – Valentin Grouès, Maria Biryukov, Christophe Trefois and Venkata Satagopam.
- Linking Wikidata to the rest of the Semantic Web – Andra Waagmeester, Egon Willighagen, Núria Queralt Rosinach, Elvira Mitraka, Sebastian Burgstaller-Muehlbacher, Tim E Putman, Julia Turner, Lynn M Schriml, Paul Pavlidis, Andrew I Su and Benjamin M Good.
- Umaka-Yummy Data: A Place to Facilitate Communication between Data Providers and Consumers – Yasunori Yamamoto, Atsuko Yamaguchi and Andrea Splendiani.
- Ontology-based reflective Iot middleware-enabled agriculture decision support system – Tommaso Di Noia, Marina Mongiello, Francesco Nocera and Eugenio Di Sciascio.
- Semantic and Interoperability in a Reporting System for Infectious Disease Control – Olga Streibel and Göran Kirchner.