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SWAT4HCLS 2023: Basel, Switzerland
- Atsuko Yamaguchi, Andrea Splendiani, M. Scott Marshall, Chris Baker, Jerven T. Bolleman, Albert Burger, Leyla Jael Castro, Ole Eigenbrod, Sabine Österle, Martin Romacker, Andra Waagmeester:
14th International Conference on Semantic Web Applications and Tools for Health Care and Life Sciences (SWAT4HCLS 2023), Basel, Switzerland, February 13-16, 2023. CEUR Workshop Proceedings 3415, CEUR-WS.org 2023 - Gerhard Kober, Livio Robaldo, Adrian Paschke:
Using BPMN for medical guidelines that integrate with FHIR-RDF. 1-10 - Varsha Gouthamchand, Ananya Choudhury, Frank Hoebers, Frederik Wesseling, Mattea Welch, Sejin Kim, Benjamin Haibe-Kains, Joanna Kazmierska, Andre Dekker, Johan van Soest, Leonard Wee:
Privacy-Preserving Dashboard for F.A.I.R Head and Neck Cancer data supporting multi-centered collaborations. 11-21 - Elif Ozkan, Remzi Celebi, Arif Yilmaz, Vincent Emonet, Michel Dumontier:
Generating Knowledge Graph Based Explanations for Drug Repurposing Predictions. 22-31 - Qingliang Li, Sunghwan Kim, Leonid Zaslavsky, Tiejun Cheng, Bo Yu, Evan E. Bolton:
Resource Description Framework (RDF) Modeling of Named Entity Co-occurrences Derived from Biomedical Literature in the PubChemRDF. 32-41 - Arif Yilmaz, Raghavendra Naidu, Christopher Brewster:
FSO: Food Safety Monitoring Ontology. 42-51 - Lorcán Pigott-Dix, Robert P. Davey:
Attention for Multi-Ontology Concept Recognition. 52-61 - Nora Abdelmageed, Felicitas Löffler
, Birgitta König-Ries:
BiodivBERT: a Pre-Trained Language Model for the Biodiversity Domain. 62-71 - Yi Chen, Fons J. Verbeek, Katherine Wolstencroft:
FAIR Functional Enrichment: Assessing and Modelling Provenance in Omics Results. 72-81
Short Papers
- Özge Erten, Shervin Mehryar, Remzi Çelebi, Christopher Brewster:
Predicting missing annotations in Gene Ontology with Knowledge Graph Embeddings and True Path Rule. 82-86 - Jae-Moon Shin, Toyofumi Fujiwara, Atsuko Yamaguchi:
Ontology-based expansion of virtual gene panels to improve diagnostic efficiency for rare genetic diseases. 87-91 - Sefika Efeoglu, Adrian Paschke:
Fine-Grained Named Entities for Corona News. 92-97 - Olga L. Giraldo, María Fernanda Cadena, Andrea Robayo-Gama, Dhwani Solanki, Tim Fellerhoff, Lukas Geist, Rohitha Ravinder, Muhammad Talha, Dietrich Rebholz-Schuhmann, Leyla Jael Castro:
Document-to-document relevance assessment for TREC Genomics Track 2005. 98-101 - Paul Knowles, Robert Mitwicki, Michal Pietrus:
Decentralised semantics in distributed health data ecosystems: Harmonising quantitative data from medical devices for improved insights-driven applications. 102-106 - Alberto Cámara Ballesteros, Nirupama Benis, César Henrique Bernabé, Inés de Oliveira Coelho, Clémence M. A. Le Cornec, Aylin Demir, Bruna dos Santos Vieira, Jose Antonio Ramírez, K. Joeri van der Velde, Shuxin Zhang, Ronald Cornet, Annika Jacobsen, Marco Roos, Franz Schaefer, Morris A. Swertz, Mark D. Wilkinson:
Surveyed common data access policies preferences amongst European Reference Networks. 107-111
Poster Papers
- Achilleas Chytas, Nick Bassiliades, Ioannis P. Vlahavas, Pantelis Natsiavas:
Towards a Systems Pharmacology Ontology: the use of state-machines paradigm. 112-113 - Daphne Wijnbergen, Rajaram Kaliyaperumal, Marco Roos, Eleni Mina:
The FAIR Data Point Populator: collaborative FAIRification and population of FAIR Data Points. 114-115 - Jerven T. Bolleman, Alan J. Bridge, Nicole Redaschi, The UniProt Consortium:
Making expert curated knowledge graphs FAIR. 116-117 - Pantelis Natsiavas, Panos Bonotis:
Towards the use of semantic rules to prioritize patient input requests in ePRO systems. 118-119 - Yasunori Yamamoto, Takatomo Fujisawa:
To build densely connected Web of RDF data. 120-121 - Ron Henkel, Dagmar Waltemath:
Contributions to the reuse and reproducibility of computational biology models. 122-123 - Rohitha Ravinder, Leyla Jael Castro, Martin Hofmann-Apitius, Dietrich Rebholz-Schuhmann:
Comparative analysis of protein function text-based embeddings and their applicability to prediction tasks. 124-125 - Shuichi Kawashima, Takatomo Fujisawa, Toshiaki Katayama:
Genome Variation Ontology for annotation of complex structural variations. 126-127 - Julio Cesar Rangel Reyes, Norio Kobayashi:
Developing a semantic event search engine for biomedical events. 128-129 - Pablo Perdomo-Quinteiro, Sergiu Siminiuc, Paraskevi Sakellariou, Marco Roos, Pietro Spitali, Núria Queralt-Rosinach:
FAIRification and semantic modelling for Duchenne and Becker Muscular Dystrophy rare diseases. 130-132 - Judith A. H. Wodke, Ron Henkel, Dagmar Waltemath:
MeDaX project plan: How to sustainably improve biomedical (research) data management. 133-134 - Gaetano Manzo, Benjamin Pocklington, Yvan Pannatier, Cathy Gay, Anjani Dhrangadhariya, Sophie Carrard, Roger Hilfiker, Jean-Paul Calbimonte:
Towards Semantic Modeling of Patient Trajectories for Rehabilitation of Osteoarthritis. 135-136 - Josh Moore, Susanne Kunis:
NFDI4BIOIMAGE: Perspective for a national bioimaging standard. 137-138 - Esther Thea Inau, Angela Dedie, Ivona Anastasova, Andreas Birkenfeld, Brigitte Fröhlich, Martin Hrabe de Angelis, Michael Roden, Renate Schick, Yaroslav Zdravomyslov, Atinkut Zeleke, Dagmar Waltemath, Martin Preusse:
First Steps Towards the FAIRification of the DZD CORE DATASET at the German Center for Diabetes Research. 139-140 - Adrian Groza, Anca Marginean, Simona Delia Nicoara:
An ontology for Age-Related Macular Degeneration using ophthalmologists and language models. 141-142 - Matthias Löbe, Aliaksandra Shutsko, Carsten Oliver Schmidt, Johannes Darms, Sophie Anne Ines Klopfenstein, Carina Nina Vorisek, Xiaoming Hu, Martin Golebiewski, Juliane Fluck:
A Semantic Representation of the NFDI4Health Metadata Schema Utilizing the CEDAR Workbench. 143-144 - Olga L. Giraldo, Renato Alves, Dimitrios Bampalikis, José M. Fernández, Eva Martin Del Pico, Fotis E. Psomopoulos, Nelson Quiñones, Dhwani Solanki, Allegra Via, Leyla Jael Castro:
A metadata analysis for machine-actionable Software Management Plans. 145-146 - Karolis Cremers, Marco Roos, Katy Wolstencroft, Eleni Mina, Núria Queralt-Rosinach:
Structured review on Huntington's disease iron hypothesis. 147-148 - Thomas Rowlands, Tim Beck:
Text mining genome-wide association study literature. 149-150 - Núria Queralt-Rosinach, Paul N. Schofield, Marco Roos, Robert Hoehndorf:
Updating the CEMO ontology for future epidemiological challenges. 151-152 - Alexander Kellmann, Max Postema, Joris de Keijser, Pjotr Svetachov, Becca Wilson, Esther van Enckevort, Morris A. Swertz:
Visualisation and Exploration of Linked Data Using Virtual Reality - a preview of Graph2VR. 153-154 - Nelson Quiñones, Cesar Canales, Javier Torres, Dietrich Rebholz-Schuhmann, Leyla Jael Castro, Andrés Aristizábal:
Multilabel-classification task for Medline abstracts. 155-156 - Lea Michaelis, Rasim Atakan Poyraz, Michael Rusongoza Muzoora, Kerstin Gierend, Alexander Bartschke, Dagmar Waltemath, Sylvia Thun:
Experiences from compiling a FAIR survey in the German Network University Medicine. 157-158 - Rohitha Ravinder, Tim Fellerhoff, Vishnu Dadi, Lukas Geist, Guillermo Rocamora, Muhammad Talha, Dietrich Rebholz-Schuhmann, Leyla Jael Castro:
OntoClue, a framework to compare vector-based approaches for document relatedness using the RELISH corpus. 159-160 - Mercedes Argüello Casteleiro, Niamh Joyce, Nava Maroto, Maria Jesus Fernandez Prieto, Timothy Furmston, Diego Maseda-Fernandez, Phillip Lord, Chris Wroe, John A. Keane, Ying Cheong, Robert Stevens:
Text-based phenotyping with Semantic Deep Learning: setting up experiments for women's health. 161-162 - Zoe Vasileiou, Georgios Meditskos, Stefanos Vrochidis, Nick Bassiliades:
An Explainable Intervention Prediction for Trauma Patients. 163-164
Demonstrations
- Guohui Xiao, Emily R. Pfaff, Eric Prud'hommeaux, David Booth, Deepak K. Sharma, Nan Huo, Yue Yu, Nansu Zong, Kathryn J. Ruddy, Christopher G. Chute, Guoqian Jiang:
FHIR-Ontop-OMOP: Querying OMOP clinical databases as FHIR-compliant Clinical Knowledge Graphs. 165-166 - Pierre Larmande, Bertrand Pitollat, Ndomassi Tando, Yann Pomie, Bill Happi, Valentin Guignon, Manuel Ruiz:
AgroLD: a Knowledge Graph for the Plant Sciences. 167-168 - Chang Sun, Johan van Soest, Michel Dumontier:
Analyze Decentralized Personal Health Data Using Solid, Digital Consent, and Federated Learning. 169-170 - Ewelina Grudzien, Eelke van der Horst, Frank van den Bergh, Maria H. Traka, Duncan Ng, Falk Hildebrand, Chris T. A. Evelo, Susan L. M. Coort, Duygu Dede Sener, Elisa Cirillo:
Managing food and microbiome studies data using Fairspace, a flexible and FAIR data management platform. 171-172
Data-In-Use Papers
- Petros Liakopoulous, Borbala Banfalvi, Xinyi Wang, Sina Majidian, Tarcisio Mendes de Farias, Christophe Dessimoz, Ana Claudia Sima:
Towards predicting essential proteins via federated SPARQL queries. 173-174 - Lydie Lane, Kasun Samarasinghe, Pierre-André Michel:
A federated query between neXtProt and OrthoDB retrieves 44 uncharacterized human proteins highly expressed in the brain and conserved in Drosophila melanogaster. 175-176 - Tarcisio Mendes de Farias, Tatsuya Kushida, Ana Claudia Sima, Christophe Dessimoz, Hirokazu Chiba, Frédéric B. Bastian, Hiroshi Masuya:
Data in use for Alzheimer disease study: combining gene expression, orthology, bioresource and disease datasets. 177-178 - Catherine A. Hayes, Vincenzo Daponte, Frédérique Lisacek:
Linking glycan and protein data. 179-180 - Sebastien Gehant, Elisabeth Coudert, Anne Morgat, Jerven T. Bolleman, Nicole Redaschi, Alan J. Bridge, The UniProt Consortium:
UniProt, ChEBI and IDSM Sachem: exploring biologically relevant ligands. 181-183
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