Simon Jupp's Publications
2011
- Simon Jupp, Matthew Horridge, Luigi Iannone, Julie Klein, Stuart
Owen, Joost Schanstra, Katy Wolstencroft, and Robert
Stevens. Populating Ontology Content with Populous. In International
Conference on Biomedical Ontologies (ICBO), Buffalo, NY,
2011. (Software demonstration.).
- Simon Jupp, Matthew Horridge, Luigi Iannone, Julie Klein, Stuart Owen,
Joost Schanstra, Robert Stevens, and Katy
Wolstencroft. Populous: A tool for populating ontology
templates. Journal of Biomedical Semantics, 2011. Accepted for publication.
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Simon Jupp, James Eales, Simon Fischer, Sebastian Land, Rishi
Ramgolam, Alan Williams, and Robert Stevens. The RapidMiner Plugin for
Taverna: Bringing Data Mining Tools to bioinformatics Workflows. In
Bioinformatics Open Source Conference 2011, a SIG held in conjuction
with ISMB 2011, Vienna, Austria, 2011. (poster presentation.).
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Simon Jupp, Robert Stevens, and Robert Hoehndorf. Exploring Gene
Ontology Annotations with OWL. In bio-ontologies 2011, a SIG held in
conjuction with ISMB 2011, Vienna, Austria, 2011.
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Simon Jupp, James Eales, Simon Fischer, Sebastian Land, Rishi
Ramgolam, Alan Williams, and Robert Stevens. Combining
RapidMiner operators with bioinformatics services - a powerful
combination. In RapidMiner Community Meeting and Conference,
(RCOMM) 2011, Dublin, Ireland, 2011.
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Robert Stevens, Simon Jupp, Julie Klein, and Joost Schanstra. Using
Semantic Web Technologies to Manage Complexity and Change in
Biomedical Data. In 33rd Engineering in Medicine and Biology
Conference, Boston, MA, USA, 2011.
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Simon Jupp , Julie Klein , Joost Schanstra and Robert
Stevens. Developing a kidney and urinary pathway knowledge base
Journal of Biomedical Semantics 2011, 2(Suppl 2):S7doi:10.1186/2041-1480-2-S2-S7
2010
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Simon Jupp, Matthew Horridge, Luigi Iannone, Julie Klein,
Stuart Owen, Joost Schanstra, Robert Stevens, and Katy
Wolstencroft. Populous: A tool for populating ontology
templates. Semantic Web Applications and Tools for Life
Sciences (SWAT4LS). Dec 2010.
- Simon Jupp, Julie Klein, Joost Schanstra and Robert Stevens. Developing a Kidney and Urinary Pathway Knowledge Base. Bio-ontologies SIG 2010, Boston, USA.
- Simon Jupp, James Eales, Simon Fischer, Jörg-Uwe Kietz, Rishi Ramgolam, Alan Williams, Robert Stevens, Carole Goble. e-LICO: Delivering Data Mining to the Life Science Community. Microsoft e-Science Workshop 2010, 11-13 October, Berkeley, CA.
- Simon Jupp and Julie Klein. e-LICO an e-Laboratory for Interdisciplinary Collaborative Research in Data-mining. Intelligent Systems in Molecular Biology Poster and Demo. 2010. Boston, USA.
- Simon Jupp, Julie Klein, Joost Schanstra, Robert Stevens, Adma Woznica, Alexandros Kalousis. Integration of Kidney and Urinary Pathway Data for Knowledge Intensive Data Mining. Demonstration, Data Integration in the Life Science (DILS 2010). Gothenburg, Sweden.
2009
- Ed de Quincey, Helen Oliver, Patty Kostkova, Gawesh Jawaheer, Gemma Madle, Gayo Diallo, Dimitra Alexopoulou, Michael Schroeder, Bianca Habermann, Khaled Khelif, Simon Jupp, Robert Stevens: Mining for Patterns of Semantic Link Usage: Do Domain Users Actually Like Semantic Browsing? Web Intelligence/IAT Workshops 2009: 50-53
- Simon Jupp, Sean Bechhofer, Robert Stevens: A Flexible API and Editor for SKOS. ESWC 2009: 506-520
- Christopher Brewster, Simon Jupp, Joanne S. Luciano, David Shotton, Robert D. Stevens, Ziqi Zhang: Issues in learning an ontology from text. BMC Bioinformatics 10(S-5): (2009)
2008
- Gayo Diallo, Gemma Madle, Gawesh Jawaheer, Patty Kostkova, Dimitra Alexopoulou, Robert Stevens, Simon Jupp and Khaled Khelif.
"A User-Centred Evaluation Framework for the SeaLife Semantic Web Browsers" Semantic Web Applications and Tools for the Life Sciences (SWAT4LS 2008), e-Science Institute, Edinburgh, Scotland.
- Simon Jupp, Robert Stevens, Sean Bechhofer, Yeliz Yesilada, Patty Kostkova.
"Knowledge Representation for Web Navigation" Semantic Web Applications and Tools for the Life Sciences (SWAT4LS 2008), e-Science Institute, Edinburgh, Scotland. Paper, Presentation
- Simon Jupp, Sean Bechhofer and Robert Stevens.
"A Felxible API and Editor for SKOS" The 7th International Semantic Web Conference (ISWC 2008). Poster and Demo Session
- Simon Jupp, Sean Bechhofer and Robert Stevens.
"SKOS with OWL: Don't be Full-ish!" OWL:Experiences and Directions, OWLED 2008. Short Paper
- Christopher Brewster, Simon Jupp, Joanne Luciano, David Shotton Robert Stevens, and Ziqi Zhang,
"Issues in learning an ontology from text." Bio-Ontologies SIG: Knowledge in Biology, ISMB 2008, pages. 9-12. 2008. article
- Sean Bechhofer, Yeliz Yesilada, Robert Stevens, Simon Jupp, Bernard Horan,
"Using Ontologies and Vocabularies for Dynamic Linking," IEEE Internet Computing, vol. 12, no. 3, pp. 32-39, May/Jun, 2008. article, bibtex
- Gayo Diallo, Patty Kostkova, Gawesh Jawaheer, Simon Jupp, Robert Stevens,
"Process of Building a Vocabulary for the Infection Domain," cbms, pp. 308-313, 2008 21st IEEE International Symposium on Computer-Based Medical Systems, 2008. article, bibtex
2007
- Simon Jupp, Robert Stevens, Sean Bechhofer, Patty Kostkova, and Yeliz Yesilada.
Document Navigation: Ontology or Knowledge Organization System?.
In NETTAB, 2007. presentation
- Simon Jupp, Robert Stevens, Sean Bechhofer, Patty Kostkova, and Yeliz Yesilada.
Converting Ontologies to Knowledge Organisation Systems for
Document Navigation.
In Bio-ontologies SIG workshop, 2007. article, presentation
- M. Horridge, Simon Jupp, Georgina Moulton, A. Rector, R. Stevens and C. Wroe (2007).
A practical guide to building OWL ontologies using the Protege-OWL plugin and CO-ODE tools - Edition 1.1 . University of Manchester, CO-ODE project. article
2005-2006
- Employed at Astra Zeneca, UK. So no publications there then.
2004
- Simon Jupp, Warren Read. An enhanced germplasmweb resource for the Arabidopsis community. GARNET 2004. poster