Semantic Web Applications and Tools for Healthcare and Life Sciences

Detailed Scientific Programme

This scientific programme is still subject to small changes.

Day 1, Tuesday December 5, 2017
08:30 Registration and poster hang-up
09:00 Welcome and Introduction
09:10 Keynote talk
FAIRy stories: tales, musings and morals.
Carole Goble, University of Manchester, United Kingdom
09:50 Oral communications
Towards a FAIR Sharing of Scientific Experiments: Improving Discoverability and Reusability of Dielectric Measurements of Biological Tissues
Md. Rezaul Karim, Matthias Heinrichs, Lars C. Gleim, Michael Cochez, Emily Porter, Alessandra La Gioia, Saqib Salahuddin, Stefan Decker, Martin O’Halloran and Oya Deniz Beyan
Embracing Semantic Technology for Better Metadata Authoring in Biomedicine
Attila L. Egyedi, Martin O’Connor, Marcos Martínez-Romero, Debra Willrett, Josef Hardi, John Graybeal and Mark Musen
10:30 Coffee break
11:00 Flash poster presentations
Revealing disease similarities by text mining
Alberto Calderone, Luana Licata, Elisa Micarelli, Livia Perfetto and Gianni Cesareni
Optimizing Semantic Data Transformation using High Performance Computing Techniques
José Antonio Bernabé Díaz, María Del Carmen Legaz-García, José Manuel García Carrasco and Jesualdo Tomás Fernández-Breis
On Improving the Phenotype Acquisition Process using Semantic Web Technology
Ernesto Jimenez-Ruiz, Dag Hovland, Laura Slaughter, Tony Handstad and Arild Waaler
BioGraph: Linking Biological Bases Across Organisms
Luana Loubet Borges and André Santanchè
Assessment of FAIRness of open data sources in life sciences
Filip Pattyn, Bérénice Wulbrecht, Kenny Knecht and Hans Constandt
Fuzzy Knowledge Base for Medical Training
Ray Dueñas Jiménez, André Santanchè, Roger Vieira Horvat, Marcelo Schweller, Tiago de Araujo Guerra Grangeia and Marco Antonio Carvalho-Filho
Implementing ELSI 2.0 for international collaborative research: improving access to clinical and genetics data by connecting ELSI policies, FAIR data software solutions, and ELIXIR-AAI
Sabina Gainotti, Carlo Petrini, Deborah Mascalzoni, Giovanna Floridia, Luciana Riva, Mark Wilkinson and Marco Roos
The FAIRification of data and the potential of FAIR resources demonstrated, in practice, at the Rome Bring Your Own Data workshop
Claudio Carta, Marco Roos, Annika Jacobsen, Rajaram Kaliyaperumal, Mark Thompson, Mark Wilkinson, Ronald Cornet, Andra Waagmeester, David van Enckevort, Mascha Jansen, Luana Licata, Allegra Via and Domenica Taruscio
LOD Surfer API: Web API for LOD Surfing using Class-Class Relationships in Life Sciences
Atsuko Yamaguchi, Kouji Kozaki, Yasunori Yamamoto, Hiroshi Masuya and Norio Kobayashi
12:00 Poster session
13:00 Lunch break
14:00 Oral communications
Achieving Pro-Active Guidance of Patients through ADL using Knowledge-Driven Activity Recognition and Complex Semantic Workflows
William Van Woensel, Patrice Roy and Syed Sibte Raza Abidi
BioKB – Text mining and semantic technologies for the biomedical content discovery
Maria Biryukov, Valentin Gruès and Venkata Satagopam
Blending FHIR RDF and OWL
Harold Solbrig, Eric Prud’Hommeaux and Guoqian Jiang
Clustering Cancer Drugs According to their Mechanisms of Action
Syed Abdullah Ali and Riza Theresa Batista-Navarro
15:20 Guest talk
10 years of hackathons: a reflection (provisional title)
Toshiaki Katayama, Human Genome Center (HGC), University of Tokyo, Japan
15:40 Panel discussion
Introduction and presentation of themes
16:20 Coffee break
16:50 Day closure & begin of social activity
Programme will be communicated at the venue.
21:00 Social dinner at the La Limonaia di Villa Torlonia, Via Lazzaro Spallanzani, 1/A, Roma. See map.
Day 2, Wednesday December 6, 2017
09:00 Registration and poster hang-up
09:20 Keynote talk
Learning with Knowledge Graphs: From Medical Decision Support to Human Perception and Memory
Volker Tresp, Ludwig Maximilan University of Munich and Siemens, Germany
10:00 Oral communications
Drug Repurposing Using a Semantic Knowledge Graph
Tareq B. Malas, Roman Kudrin, Sergei Starikov, Dorien Peters, Marco Roos, Peter A.C. ʼt Hoen and Kristina Hettne
10:20 Coffee break
10:50 Flash poster presentations
Metadata-driven interdisciplinary research projects using RIKEN MetaDatabase
Norio Kobayashi, Satoshi Kume and Hiroshi Masuya
Bioschemas: for the Life Sciences
Leyla Jael García Castro, Olga X. Giraldo, Alexander Garcia, Michel Dumontier and Bioschemas Community
The UniProt SPARQL Endpoint: 32 Billion Triples in Production
Jerven Bolleman, Sebastien Gehant, Thierry Lombardot, Alan Bridge, Ioannis Xenarios and Nicole Redaschi
Document-centric workflow: a framework for ontology development
Aisha Blfgeh and Phillip Lord
Visualizing metabolomics data in directed biological networks
Ryan Miller, Denise Slenter, Martina Kutmon, Jonathan Melius, Georg Summer, Chris Evelo and Egon Willighagen
Shō-coin: A knowledge-based economy for Life Sciences
Alexander Garcia, Erick Antezana, Jael García, Olga X. Giraldo, Pjotr Prins and Rutger Vos
Towards an Ontology for Sharing Information on Pharmacovigilance Signals
Pantelis Natsiavas and Vassilis Koutkias
Construction of Knowledge-base for Clinical Interpretation of Genomic Variants
Mayumi Kamada, Toshiaki Katayama, Shuichi Kawashima, Ryosuke Kojima, Masahiko Nakatsui and Yasushi Okuno
DISQOVER: Through the large data landscape of Life Sciences
Berenice Wulbrecht, Filip Pattyn, Kenny Knecht and Hans Constandt
SPARQL-Proxy: a generic proxy server for SPARQL endpoint
Shuichi Kawashima and Toshiaki Katayama
SPARQList: Markdown-based highly configurable REST API hosting server for SPARQL
Toshiaki Katayama and Shuichi Kawashima
Message Exchange between Independent Implementations of Servers in the Nexus-PORTAL-DOORS System
Adam Craig, Seung-Ho Bae and Carl Taswell
Overview of a suite of tools and training material for implementing FAIR data principles
Mark Thompson, Luiz Olavo Bonino Da Silva Santos, Kees Burger, Rajaram Kaliyaperumal, Erik Schultes, Annika Jacobsen, Claudio Carta, Richard Finkers, David van Enckevort, Mascha Jansen, Barend Mons and Marco Roos
11:50 Poster session
12:50 Lunch break
13:50 Panel discussion
Discussion on identified themes and conclusions
14:50 Keynote talk
The Human Phenotype Ontology: A Semantic Framework for Phenotype Driven Translational Research and Genomic Diagnostics.
Peter Robinson, The Jackson Laboratory for Precision Medicine, Farmington, USA
15:30 Coffee break
16:00 Oral communications
Approach to an ontology-based mobile intervention for patients with hypertension
Tyler Wheeler and Samina Abidi
Leveraging logical rules for efficacious representation of large orthology datasets
Tarcisio M. Farias, Hirokazu Chiba and Jesualdo T. Fernández-Breis
Experiments to create ontology-based disease models for diabetic retinopathy from different biomedical resources
Mercedes Arguello Casteleiro, Catalina Martínez Costa, Julio Des-Diz, Maria Jesus Fernandez-Prieto, Chris Wroe, Diego Maseda-Fernandez, George Demetriou, Goran Nenadic, John Keane, Stefan Schulz and Robert Stevens
Machine Learning based Drug Indication Prediction using Linked Open Data
Remzi Çelebİ, Özgün Erten and Michel Dumontier
17:20 Short communications
Enriching the Human Phenotype Ontology with inferred axioms from textual descriptions
Shahad Kudama, Rafael Berlanga and Ernesto Jiménez-Ruiz
Linking African Traditional Medicine Knowledge
A. Gossa Lo, Victor de Boer and Stefan Schlobach
A Semantic Web Framework for Behavioral User Modeling and Action Planning for Personalized Behavior Modification
William Van Woensel, Wasif Baig, Syed Sibte Raza Abidi and Samina Abidi
Developing A Semantic Web-based Framework for Executing the Clinical Quality Language Using FHIR
Guoqian Jiang, Eric Prud’Hommeaux and Harold Solbrig
18:00 Day closure & farewell