— Preliminary —
December 3rd Tutorial day
Data and Standards (data and standards: challenges where semantics can make an impact)
Data science (fundamentals)
Semantics (Semantic tools and applications)
| Room A | Room B | Room C | |
| 9:00-10.30 |
Data and Standards Semantic Web in the Pharmaceutical Industry: A Landscape of Challenges and Opportunities |
Data Science |
Semantics LOD4CG & BioFed: Publishing and Accessing Large-Scale Cancer and Biomedical Linked Data Resources |
| Coffee Break | |||
| 11:00-12.30 |
Data and Standards |
Data Science tutorial continues
|
Semantics tutorial continues
|
| Lunch Break | |||
| 13.30-15.00 |
Data and Standards |
Data and Standards Agricultural semantics: challenges, opportunities and the AgroFIMS fieldbook |
Semantics |
| Coffee Break | |||
| 15.30-17.00 |
Data and Standards Knowledge representation for computational phenotyping
|
Data and Standards tutorial continues
|
Semantics The CEDAR Workbench: Enhanced Authoring of Standards-Based Metadata for use on the Semantic Web |
| Reserved (17-18) |
Data and Standards |
Data and Standards |
Semantics |
| Reception | |||
December 4th-5th Conference days
Conference day 1
| 8.30-9.00 | Registration |
| 9.00-9.15 | Welcome, introduction. Outline of the conference and hackathon |
| 9.15-10.00 |
Keynote by Philip Bourne |
| 10.00-10.35 |
Selected Talks Using semantic technologies to enhance metadata submissions to public repositories in biomedicine. Attila L. Egyedi, Martin O’Connor, Marcos Martínez-Romero, Debra Willrett, Josef Hardi, John Graybeal and Mark Musen. 10.6084/m9.figshare.7324175 Using Wikidata for semantic data modeling in education and research. Annika Jacobsen, Andra Waagmeester, Rajaram Kaliyaperumal, Greg Stupp, Lynn Schriml, Mark Thompson, Andrew I. Su and Marco Roos. (short paper) 10.6084/m9.figshare.7415282 |
| 10.35-11.15 | Coffee break |
| 11.15-12.30 |
Selected talks The Story of an Experiment: A Provenance-based Semantic Approach towards Research Reproducibility. Sheeba Samuel, Kathrin Groeneveld, Frank Taubert, Daniel Walther, Tom Kache, Teresa Langenstück, Birgitta König-Ries, Martin Buecker and Christoph Biskup. 10.6084/m9.figshare.7345865 DSAP: Data Sharing Agreement Privacy Ontology. Mingyuan Li and Reza Samavi. 10.6084/m9.figshare.7322420 A model for capturing provenance of assertions about chemical substances. Kody Moodley, Amrapali Zaveri, Chunlei Wu and Michel Dumontier. 10.6084/m9.figshare.7325189 Increasing the nanopublication recall with a BridgeDb Identifier Mapping Service. Egon Willighagen. (short paper) 10.6084/m9.figshare.7346384 |
| 12.30-13.30 | Lunch break |
| 13.30-14.15 |
Keynote by Medha Devare |
| 14.15-15.10 |
Selected Talks Design of a framework to support reuse of Open Data about agriculture. Alec Gordon, Mohammad Sadnan Al Manir, Brandon Smith, Amir Hossein Rezaie and Christopher Baker. 10.6084/m9.figshare.7376765 Lightly specified ontologies for access to agricultural information across languages and domains. Tom Baker. Ontology-Driven Metadata Enrichment for Genomic Datasets. Anna Bernasconi, Arif Canakoglu, Andrea Colombo and Stefano Ceri. 10.6084/m9.figshare.7343465 |
| 15.10-15.30 | Lightning poster presentations |
| 15.30-16.30 | Poster and demo session, Coffee break |
| 16.30-18.00 |
Panel discussion (Agrisemantics) André Laperrière, Christopher Brewster, Thomas Baker, Graham Mullier and Matthew Lange |
| Social dinner | |
Conference day 2
| 8.30-9.00 | Registration |
| 9.00-9.15 | Recap from the previous day |
| 9.15-10.00 |
Keynote by Christian Lovis |
| 10.00-10.40 |
Selected Talks Sparklis over PEGASE Knowledge Graph: A New Tool for Pharmacovigilance. Carlos Bobed, Laura Douze, Sébastien Ferré and Romaric Marcilly. 10.6084/m9.figshare.7370051 Allotrope Data Format – Semantic Data Management in Life Sciences. Heiner Oberkampf, Helge Krieg, Christian Senger, Thomas Weber and WolfgangColsman. (Industry report) 10.6084/m9.figshare.7346489 Architecture for the harmonization of clinical cohort data in the IMI EMIF project. Rudi Verbeeck, Luiza Gabriel and Michel van Speybroeck. (Industry report) 10.6084/m9.figshare.7321949 |
| 10.40-11.15 | Coffee break |
| 11.15-12.30 |
Selected talks A Distributed Analytics Platform to Execute FHIR based Phenotyping Algorithms. Md. Rezaul Karim, Binh-Phi Nguyen, Lukas Zimmermann, Toralf Kirsten, Matthias Löbe, Frank Meineke, Holger Stenzhorn, Oliver Kohlbacher, Stefan Decker and Oya Beyan. 10.6084/m9.figshare.7392497 A Semantic Data Integration Methodology for Translational Neurodegenerative Disease Research. Sumit Madan, Maksims Fiosins, Stefan Bonn and Juliane Fluck. 10.6084/m9.figshare.7339244 Cooperation of bio-ontologies for the classification of genetic intellectual disabilities: a diseasome approach. Gabin Personeni, Marie-Dominique Devignes, Malika Smail-Tabbone, Philippe Jonveaux, Céline Bonnet and Adrien Coulet. 10.6084/m9.figshare.7330868 Progress Towards an Ontology Mapping Service. Industry (38) Ian Harrow, Martin Romacker, Andrea Splendiani, Peter Woollard, Tom Plasterer, Rainer Winnenburg, Scott Markel, Siddharth Mehta, Chris Piddington, Yasmin Alam-Faruque, Rama Balakrishnan, Jane Lomax, Jane Reed, Christian Senger, Jabe Wilson, Filip Pattyn, Ernesto Jimenez-Ruiz and Simon Jupp. (Industry report) 10.6084/m9.figshare.7346057 |
| 12.30-13.30 | Lunch break |
| 13.30-14.15 |
Keynote by Dean Allemang |
| 14.15-14.55 |
Selected talks Evaluation of Knowledge Graph Embedding Approaches for Drug-Drug Interaction Prediction using Linked Open Data. Remzi Çelebi, Erkan Yaşar, Hüseyin Uyar, Özgür Gümüş, Oguz Dikenelli and Michel Dumontier. 10.6084/m9.figshare.7325186 Vec2SPARQL: integrating SPARQL queries and knowledge graph embeddings. Maxat Kulmanov, Senay Kafkas, Andreas Karwath, Alexander Malic, Georgios V Gkoutos, Michel Dumontier and Robert Hoehndorf. 10.6084/m9.figshare.7423673 |
| 14.55-16.00 | Poster and demo session, Coffee break |
| 16.00-16.40 |
Selected talks Data2Services: enabling automated conversion of data to services. Vincent Emonet, Amrapali Zaveri, Alexander Malic, Andreea Grigoriu and Michel Dumontier. 10.6084/m9.figshare.7345868 Getting the best of Linked Data and Property Graphs: rdf2neo and the KnetMiner Use Case. Marco Brandizi, Ajit Singh and Keywan Hassani-Pak. 10.6084/m9.figshare.7314323 |
| 16.40-17.30 |
Healthcare interoperability panel discussion Mark Musen, Harold Solbrig, Michel Van Speybroeck, Caroline Boenisch
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December 6th Hackathon day
We have already collected some awesome pitches. Feel free to add your idea to the hackathon brainstorming form!