Semantic Web Applications and Tools for Healthcare and Life Sciences
swat4hcls 2019 Edinburgh


 — Draft Programme –

December 9th – Tutorials

8.30-9.00: coffee

9.00-11.00: Tutorials part 1

11.00-11.30: coffee

11.30-13.00: Tutorials part 2

13.00-14.00: lunch

14.00-14.30: Tutorials part 1 / 3

15.30-16.00 coffee

16.00-18.00: Tutorials part 2 / 4

Full day (9:00-18:00):

  • Querying SIB Swiss Institute of Bioinformatics resources with SPARQL (Jerven Bolleman, Dmitry Kuznetsov, Thierry Lombardot, Julien Mariethoz, Tarcisio Mendes, Marco Pagni, Monique Zahn/Lydie Lane)

Morning (9:00-13:00):

  • Creating a federated linked data landscape with Wikidata and Wikibase (Andra Waagmeester)
  • FHIR on Solid is FAIR (Eric Prud’hommeaux)

Afternoon (14:00-18:00):

December 10th – Conference Day 1

8.30-9.00 Registration
9.00-9.15 Welcome, introduction.
9.15-10.00 Keynote by Denny Vrandečić‎ 
Wikidata and beyond – Knowledge for everyone by everyone
10.00-10.40 Presentations:

  • Enhancing the maintainability of the Bio2RDF project using declarative mappings
  • Suggesting Reasonable Phenotypes to Clinicians
10.40-11.10 Coffee break
11.10-12.30 Presentations:

  • A FHIR-to-RDF converter (short paper)
  • A framework for representing clinical research in FHIR
  • Reconciling author names in taxonomic and publication databases
  • On Bringing Bioimaging Data into the Open(-World)
12.30-13.30 Lunch break
13.30-14.15 Keynote by Birgitta König-Ries
Semantics for FAIR research data management
14.20-14.50 Lightning poster presentations:

  • Realizing FAIR Data in an Enterprise Environment
  • Representing Biomedical Knowledge using Semantic Data Dictionaries
  • FAIR-ification of relational data to RDF for rapid learning healthcare
  • FAIRsharing Application Ontologies: mapping subjects and domains across the humanities and natural sciences
  • Implementing FAIR Principles in InterMine
  • Publishing linked and FAIR-compliant radiomics data in radiation oncology via ontologies and Semantic Web techniques
  • A modular approach to knowledge graphs and FAIR data in healthcare.
  • MOLGENIS catalogue – towards a unified application for data and sample catalogues
  • Semi-Automated Data-Driven Methods to Support Ontology Development: A Case Study on a Rehabilitation Therapy Ontology
  • Ontology Mapping for the Laboratory Analytics Domain
  • OME Core Ontology: An OWL-based Life Science Imaging Data Model
  • The 4DN-OME ontology: an OME-OWL extension with emphasis on usability, minimum information guidelines and quality control for super-resolution fluorescence microscopy
14.50-15.30 Presentations:

  • Making clinical trials available at the point of care – connecting Clinical trials to Electronic Health Records using SNOMED CT and HL7 InfoButton standards
  • A Blueprint for Semantically Lifting Field Trial Data: Enabling Exploration using Knowledge Graphs
15.30-16.30 Poster and demo session, Coffee break
16.30-18.00 Panel discussion (Spotlight on Agrisemantics II)

Conference Dinner

Our social event will be a conference dinner taking place at Howies Restaurant in Waterloo Place, just next to Calton Hill.
We will be ordering from the Festive Menu (see page 2).

December 11th – Conference Day 2

8.30-9.00 Registration
9.00-9.15 Recap from the previous day
9.15-10.00 Keynote by Dov Greenbaum
Data Ownership and protection within the FAIR Framework
10.00-10.40 Presentations:

  • Documentation Gap in Ontology Creation: Insights into the Reality of Knowledge Formalization in a Life Science Company
  • Partitioning of BioPortal Ontologies: An Empirical Study
10.40-11.10 Coffee break
 11.10-12.30 Presentations:

  • Annotation of existing databases using Semantic Web technologies: making data more FAIR
  • FAIRness of openEHR Archetypes and Templates
  • A Working Model for Data Integration of Occupation, Function and Health
  • FAIR quantitative imaging in oncology: how Semantic Web and Ontologies will support reproducible science
12.30-13.30 Lunch break
13.30-14.15 Keynote by Helen Parkinson
A FAIR Vocabulary Odyssey
14.15-14.45 Lightning poster presentations:

  • Babylon Health’s Medical Knowledge Graph: Why, What, and How
  • Transformation and integration of heterogeneous health data in a privacy-preserving distributed learning infrastructure
  • Semantic Integration of Intrinsically Disordered Proteins and Existing DBs
  • Semantic models for pharma: Connecting data across drug discovery
  • Umaka data extension: Towards Realisation of Practical SPARQL Endpoint Discovery Service for Life Sciences
  • Finding the best RDF data by Umaka Suite
  • Demonstration for Species Association Knowledge Graph Construction
  • Med2RDF: Semantic Biomedical Knowledge-base and APIs for the Clinical Genome Medicine
  • MetaStanza: Generic WebComponents Widgets for Visualizing SPARQL Results on the Web
  • Integrated Growth Media Database by Standardizing Ingredient Information
  • Preserving semantic data models: from graphical representations to OWL
  • SemanticGenomeGraphs
  • Network building with Cytoscape App queries to the BioGateway 3.0 triple store
14.45-15.45 Poster and demo session, Coffee break
15.45-16.45 Panel discussion
16.45-17.15 Conference wrap-up & Hackathon outlook

December 12th – Hackathon

Coming soon


All Keynotes, Tutorials, Accepted Papers, Posters and demos are now online.