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ORCIDICBO 2012: Graz, Austria
- Ronald Cornet, Robert Stevens:
Proceedings of the 3rd International Conference on Biomedical Ontology (ICBO 2012), KR-MED Series, Graz, Austria, July 21-25, 2012. CEUR Workshop Proceedings 897, CEUR-WS.org 2012
Session 1: Monday, 23 July, AM
- Ramona L. Walls, Barry Smith, Justin Elser, Albert Goldfain, Dennis W. Stevenson, Pankaj Jaiswal:
A plant disease extension of the Infectious Disease Ontology. - João D. Ferreira, Catia Pesquita, Francisco M. Couto, Mário J. Silva:
Bringing epidemiology into the Semantic Web. - Albert Goldfain, Lindsay G. Cowell, Barry Smith:
Constructing a Lattice of Infectious Disease Ontologies from a Staphylococcus aureus Isolate Repository. - Suzanne L. Santamaria, Maureen Fallon, Julie M. Green, Stefan Schulz, Jeffrey R. Wilcke:
Developing the Animals in Context Ontology. - Hiroshi Masuya, Riichiro Mizoguchi:
An Ontology of Gene.
Session 2: Monday, 23 July, PM
- Heiner Oberkampf, Sonja Zillner, Bernhard Bauer:
Interpreting Patient Data using Medical Background Knowledge. - Watson Wei Khong Chua, Jung-Jae Kim:
Discovering Cross-Ontology Subsumption Relationships by Using Ontological Annotations on Biomedical Literature. - Fabrício Mendonça, Kátia Coelho, André Queiroz de Andrade, Mauricio Barcellos Almeida:
Knowledge Acquisition in the construction of ontologies: a case study in the domain of hematology. - Rachel L. Richesson, Jyotishman Pathak, Wendy McLeod, Ginger Blackmon, Kendra Vehik:
Requirements and Strategy for the Development of a Pediatric Drug Ontology. - Daniel Schober, Vojtech Svátek, Martin Boeker:
Checking Class Labels against Naming Conventions: First experiences with the OntoCheck Protégé plugin.
Session 3: Tuesday, 24 July, AM
- Patrice Seyed, Alan L. Rector, Uli Sattler, Bijan Parsia, Robert Stevens:
Representation of Part-Whole Relationships in SNOMED CT. - Janna Hastings, Nicolas Le Novère, Werner Ceusters, Kevin Mulligan, Barry Smith:
Wanting what we don't want to want: Representing addiction in interoperable bio-ontologies. - Michael Bada, Karen Eilbeck:
Efforts toward a More Consistent and Interoperable Sequence Ontology. - Christian Boelling, Michel Dumontier, Michael Weidlich, Hermann-Georg Holzhütter:
Role-based representation and inference of biochemical processes. - Jean Marie Rodrigues, Stefan Schulz, Cédric Bousquet, Julien Souvignet:
The CEN ISO Standard Categorial Structure as a Top-Level Set of Constraints for Ontology Disambiguation. - María Del Carmen Legaz-García, Catalina Martínez-Costa, Marcos Menárguez Tortosa, Jesualdo Tomás Fernández-Breis:
Exploitation of ontologies for the management of clinical archetypes in ArchMS.
Session 4: Tuesday, 24 July, PM
- Aravind Venkatesan, Vladimir Mironov, Martin Kuiper:
Towards an integrated knowledge system for capturing gene expression events. - Simon Walk, Markus Strohmaier, Tania Tudorache, Natalya Fridman Noy, Csongor Nyulas, Mark A. Musen:
Recommending Concepts to Experts: An Exploration of Recommender Techniques for Collaborative Ontology Engineering Platforms in the Biomedical Domain. - Valerie Cross, Pramit Silwal, David Morell:
Using a Reference Ontology with Semantic Similarity in Ontology Alignment. - Maria Copeland, Andy Brown, Helen E. Parkinson, Robert Stevens, James Malone:
The SWO Project: A Case Study for Applying Agile Ontology Engineering Methods for Community Driven Ontologies. - Bo Fu, Lars Grammel, Margaret-Anne D. Storey:
BioMixer: A Web-based Collaborative Ontology Visualization Tool. - Simon Jupp, Andrew Gibson, James Malone, Robert Stevens:
Taking a view on bio-ontologies. - André Queiroz de Andrade, Mauricio Barcellos Almeida, Stefan Schulz:
Revisiting ontological foundations of the OpenEHR Entry Model.
Session 5: Wednesday, 25 July, AM
- Colin R. Batchelor, Janna Hastings:
Waves and fields in bio-ontologies. - Martin Boeker, Daniel Schober, Djamila Raufie, Niels Grewe, Johannes Röhl, Ludger Jansen, Stefan Schulz:
Teaching Good Biomedical Ontology Design. - Kouji Kozaki, Riichiro Mizoguchi, Takeshi Imai, Kazuhiko Ohe:
Identity Tracking of a Disease as a Causal Chain.
ICBO Poster Abstracts
- Mélanie Courtot, Ryan Remy Brinkman, Alan Ruttenberg:
Adverse events following immunization: reporting standardization, automatic case classification and signal detection. - Ashutosh Malhotra, Michaela Gündel, Martin Hofmann-Apitius:
ADO: A formal ontology for understanding structure of information and domain knowledge of Alzheimer's disease. - Li Ni, Carol J. Bult, James A. Kadin, Joel E. Richardson, Martin Ringwald, Janan T. Eppig, Judith A. Blake:
Using Biomedical Ontologies for Data Representation and Management in the Mouse Genome Informatics (MGI) System. - Elvira Mitraka, Pantelis Topalis, Emmanuel Dialynas, Vicky Dritsou, Christos Louis:
IDODEN: An Ontology for Dengue. - Vicky Dritsou, Pantelis Topalis, Emmanuel Dialynas, Elvira Mitraka, Christos Louis:
miRNAO: An Ontology for microRNAs. - Ramona L. Walls, Hong Cui, James A. Macklin, Chris Mungall, Laurel Cooper, Dennis W. Stevenson, Pankaj Jaiswal:
Mapping of glossary terms from the Flora of North America to the Plant Ontology enhances both resources. - Janna Hastings, Paula de Matos, Adriano Dekker, Marcus Ennis, Venkatesh Muthukrishnan, Steve Turner, Gareth I. Owen, Christoph Steinbeck:
Modular Extensions to the ChEBI Ontology. - Jörg Niggemann:
The ontological challenge of laterality. - Danielle Welter, Tony Burdett, Lucia Hindorff, Heather Junkins, Jackie MacArthur, Helen E. Parkinson:
GOCI: An Ontology-Driven Search and Curation Infrastructure for the NHGRI GWAS Catalog. - Robert Yao, Jeffrey Buchhalter, Graciela Gonzalez:
Proposed Ontology for Seizure and Epilepsy. - Kele T. Belloze, Daniel Igor S. B. Monteiro, Tulio F. Lima, Floriano P. Silva Jr., Maria Cláudia Cavalcanti:
Analyzing Tools for Biomedical Text Annotation with Multiple Ontologies. - Zuoshuang Xiang, Yu Lin, Yongqun He:
Ontorat web server for automatic generation and annotations of new ontology terms. - Jie Zheng, Zuoshuang Xiang, Christian J. Stoeckert Jr., Yongqun He:
Ontodog: A Web-based Ontology Community View Generator.
ICBO Software Demonstration Abstracts
- Francisco M. Couto, João D. Ferreira, João Zamite, Carlos Santos, Tiago Posse, Paulo M. L. A. Graça, Dulce Domingos, Mário J. Silva:
The Epidemic Marketplace Platform: towards semantic characterization of epidemiological resources using biomedical ontologies. - Eleni Mikroyannidi, Luigi Iannone, Robert Stevens:
RIO: The Regularities Inspector for Ontologies Plugin for Protégé-4. - José Antonio Miñarro-Giménez, Mikel Egaña Aranguren, Jesualdo Tomás Fernández-Breis, Erick Antezana:
NCBO-Galaxy: bridging the BioPortal web services and the Galaxy platform. - Alasdair J. G. Gray, Sune Askjaer, Christian Y. A. Brenninkmeijer, Kees Burger, Christine Chichester, James M. Eales, Chris T. A. Evelo, Carole A. Goble, Paul Groth, Lee Harland, Antonis Loizou, Steve Pettifer, Rishi Ramgolam, Mark Thompson, Andra Waagmeester, Antony J. Williams:
The Pharmacology Workspace: A Platform for Drug Discovery. - Shao Fen Liang, Robert Stevens, Donia Scott, Alan L. Rector:
OntoVerbal: a Protégé plugin for verbalising ontology classes. - Elena Voyloshnikova, Bo Fu, Lars Grammel, Margaret-Anne D. Storey:
BioMixer: Visualizing Mappings of Biomedical Ontologies. - Hong-Woo Chun, Chang-Hoo Jeong, Sa-Kwang Song, Yunsoo Choi, Sung-Pil Choi, Hanmin Jung:
Smart Searching System for Biomedical Information. - Tiago Grego, Francisco R. Pinto, Francisco M. Couto:
Identifying Chemical Entities based on ChEBI. - Sivaram Arabandi, Helen Moran:
ClinicalKey: Terminology driven Semantic Search. - Gwen A. Frishkoff, Robert M. Frank:
The NEMO Analysis Pipeline: EEG Pattern Extraction and Ontology-based Classification.
ICBO Early Career Symposium Abstracts
- Mélanie Courtot:
Knowledge representation in Health Research: the modeling of Adverse Events Following Immunization. - Samuel Croset:
OWL Representation of Drug Activities on Biological Systems. - Matthew C. Lange:
Nutriknow: a comprehensive foods-for-health knowledge repository. - Pablo López-García:
Ontology customization for biomedical informatics. - Alessander Botti Benevides:
An ontologically well-founded framework for modelling Business Organizations, Processes and Services. - Marion Haemmerli:
The Issue of Perspectivality in Formal Theories of Spatial Representation. - Nikhil Dinesh:
Representing Core Themes in a Biology E-Textbook. - Aleksandra Sojic, Oliver Kutz:
Representing biomedical knowledge: A view from the philosophy of science. - Xiaowei Wang:
An Ontology of Software Evolution. - Daniel Kless:
Quality ontology engineering based on thesauri. - Bissan Audeh:
Semantic query expansion for fuzzy proximity information retrieval model. - Patrice Seyed:
A Method for Evaluating Ontologies.
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