User:Alexgarciac

Alexander Garcia alexgarciac@gmail.com, Skype:wigner2689 FAX: +57-1-6729301 Voice: +57-1-6729301 Research interest Bioinformatics, Semantic Web, ontologies, Knowledge Engineering, grid technology, database and ontology interoperability, biomedical information, HCI, virtual communities of practice, user interface design, intelligent interfaces, cognitive support, designing children’s technology

Education University of Queensland, Brisbane, Queensland, Australia. PhD, Thesis Title “Developing Ontologies in the Biomedical Domain”, awarded on October 2007. Garcia Castro A, Chen Y-PP, Ragan MA: Information integration in molecular bioscience: a review. Applied bioinformatics 2005, 4(3):157-173. URL http://www.ingentaconnect.com/content/adis/abi

Garcia Castro A, Samuel Thoraval, Jael Garcia, Ragan MA: Workflows in bioinformatics: meta- analysis and prototype implementation of a workflow generator. BMC 2005,6:87. URL http://www.pubmedcentral.nih.gov/articlerender.fcgi?&pubmedid=15813976

Garcia Castro A, Rocca-Serra P, Stevens R, Taylor C, Nashar K, Ragan MA, Sansone S: The use of concept maps during knowledge elicitation in ontology development processes - the nutrigenomics use case. BMC 2006, 7:267. URL http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=1524992

Fostel J, Choi D, Zwickl C, Morrison N, Rashid A, Hasan A, Bao W, Richard A, Tong W, Garcia Castro A, Bushel P et al: Chemical effects in biological systems, the data dictionary (CEBS-DD): a compendium of terms for the capture and integration of biological study design description, conventional phenotypes and omics data. Journal of Toxicological Sciences 2005, 88(2):585-601 URL http://www.ingentaconnect.com/content/oup/toxsci/2005/00000088/00000002/art00585

Dasty2, an Ajax protein DAS client. Rafael Jimenez, Kieran O’Neill, Alexander Garcia, Gustavo Salazar, Henning Hermjakob. Bioinformatics, 24(18):2119-21. http://www.ncbi.nlm.nih.gov/pubmed/18694895

ONTODAS, a Gene Ontology query builder for the DAS environment. Kieran O’Neill, Alexander Garcia-Castro, Rafael Jimenez, Anita Schwegmann, Henning Hermjakob. BMC Bioinformatics, October, 2008. http://www.biomedcentral.com/1471-2105/9/437

Alexander Garcia Castro, Immanuel Normann, Joana Hois, Oliver Kutz “Ontologizing metadata for assistive technologies: The OASIS repository”. IEEE Explore, October 2008.

The Structural Ontology for Document Annotation, SODA. Bridging the Gap amongst Papers, Ontologies and Folksonomies. Alexander Garcia, Leyla-Jael Garcia, Olga X. Giraldo, Rafael Jimenez To be submitted to The Journal of Data and Knowledge engineer.

The Semantic Web and the Social Web heading towards a Living Document in life sciences. Alexander Garcia, Leyla-Jael Garcia, Alberto Labarga, Olga Giraldo, Cesar Montana, John Bateman. Journal of the Semantic Web; Special issue “ The ELSEVIER Grand challenge. Journal of Data and Knowledge Engineering. Elsevier Grand Challenge Semi-Finalist.

Garcia Castro A, Sansone AS, Rocca-Serra P, Taylor C, Ragan MA: The use of conceptual maps for two ontology developments: nutrigenomics, and a management system for genealogies. In: 8th Intl Protégé Conference Protégé:2005; Madrid, Spain; 2005: 59-62. URL http://protege.stanford.edu/conference/2005/submissions/posters/poster-garcia.pdf

Garcia Castro A, Thoraval S, Garcia Castro Leyla-Jael., Ragan MA: G-PIPE, an implementation. In: NETTAB: 2005; Naples, Italy; 2005. URL http://www.nettab.org/2005/docs/NETTAB2005_ThoravalOral.pdf

Garcia Castro A, Sansone AS, Taylor CF, Rocca-Serra P: A conceptual framework for describing biological investigations. In: NETTAB: 2005; Naples, Italy; 2005. URL http://www.nettab.org/2005/docs/NETTAB2005_SansoneOral.pdf

Garcia Castro A: Cognitive support for an argumentative structure during the ontology development process. In: 9th Intl Protégé Conference: July, 2006 2006; Stanford, CA, USA; 2006. URL http://protege.stanford.edu/conference/2006/submissions/abstracts/9.3_garciaetal-protege2.pdf

OntoDas - integrating DAS with ontology-based queries. Kieran O'Neill, Rafael Jimenez, Dan Jacobson, Alexander Garcia-Castro. Bio-Ontologies SIG Workshop 2007, Vienna, Austria, 20th July 2007. URL http://www.nbn.ac.za/~kieran/OntoDasBioSapiens.pdf

Conferences workshop papers and book chapters from 2000 to 2008 K M O’Neill, A Garcia-Castro, D Jacobson (2007) Knowledge Driven User Interfaces for - Complex Biological Queries  Proceedings of the First Southern African Bioinformatics Workshop Edited by:, S Hazelhurst, M Ramsay. Johannesburg, South Africa. URL http://www.nbn.ac.za/~kieran/VisualQueryFacilitation.pdf

Capturing and modeling neuro-radiological knowledge on a community basis, the head injury scenario, Alexander Garcia, Zhuo Zhang, Menaka Rajapakse, Christopher J. O. Baker, Suisheng Tang, Health and Life Sciences workshop at the WWW2008 international conference

Alexander Garcia Castro, Immanuel Normann, Joana Hois, Oliver Kutz “Ontologizing metadata for assistive technologies: The OASIS repository”. OntoTrack workshop, Liverpool, September 2008.

Juan F. Sequeda, Alexander Garcia-Castro, Oscar Corcho, Syed Hamid Tirmizi, Daniel P. Miranker. “Overcoming database heterogeneity to facilitate social networks: the Colombian displaced population as a case study”. WWW09, April 2009, Madrid, Spain.

OLS2OWL, a repository management facility. Alexander Garcia, Leyla-Jael Garcia, Jose Villaveces, Guillermo Calderon, Martin Hepp. Oral presentation at the 11th Protégé International Conference, June 2009, Amsterdam.

Leyla Jael García-Castro, Martin Hepp, Alexander García: Tags4Tags: Using Tagging to Consolidate Tags, in: DEXA 2009. Proceedings of the 20th International Conference on Database and Expert Systems Applications, August 31 - September 4, 2009, Linz, Austria, Springer LNCS (forthcoming).

Alexander Garcia, Leyla-Jael Garcia, Alberto Labarga, Olga X Giraldo, Cesar Montana, Kieran O'Neill, John Bateman. Annotating Atomic Components of Papers in Digital Libraries: Semantic Web and

Social Web heading towards a Living Document supporting the Life e-Sciences. : DEXA 2009. Proceedings of the 20th International Conference on Database and Expert Systems Applications, August 31 - September 4, 2009, Linz, Austria, Springer LNCS.

Alexander Garcia, Frank Gibson, Kieran O'Neill, Leyla-Jael Garcia, Oscar Corcho, Phillip Lord, Robert Stevens. Semantic e-Science, “The melting point, communities of practice developing ontologies”. In Annals of Information System, Springer Verlag 2009. Eds. Huajun Chen, Yimin Wang and Kei Cheung L. J. García-Castro, M. Hepp, A. García. HyperTag: Where tags meet semantics – A tagging approach to build semantic knowledge representations. Submitted to ESWC 2010 –Extended Semantic Web Conference, Social Web Track

Other peer reviewed publications, posters and technical reports from 2000 to 2008

• The use of computational tools for the education in biochemistry, Expociencia, Bogota, 2001. • SEMA, “A systematic/semantic literature annotator for molecular biology databases”, ISMB 2003, Brisbane Australia. 2003. Garcia Alexander, Cleary John, Yi-Ping PhoebeChen, Ragan Mark A; Award-winning poster, Best Australian Poster ISMB 2003. •   G-PIPE, “A pipeline generator for PISE”, ISMB 2003, Brisbane Australia. 2003. Garcia Alexander, Thoraval Samuel, Garcia Leyla-Jael, Yi-Ping Phoebe Chen, Ragan Mark A • Chime and RasMol, educational tools in biochemistry; electronic and printed publication, GACETA, Colombian Academy of Sciences. Garcia Alexander. 2000. • CHIME&RasMol, Janeth Vasquez, Alexander Garcia. Online publication, http://www.accefyn.org.co/rasmol/Indice.htm • Alexander García Castro, “Implementación de servicios de análisis usando tecnología Open-Source”. Lecturas Matemáticas Vol 25 [2] (2004). 211 - 218 URL http://www.scm.org.co/Articulos/758.pdf • Web Services and LSIDs in Crop Information Systems, Mark Wilkinson, Martin Senger, Alexander Garcia. Internal report, Generation Challenge Program, IRRI, Philippines, 2003. • The use and design of Web Services in Laboratory Management Systems, Alexander Garcia. Internal Report, International Center for Tropical Agriculture, CIAT, Cali, Colombia, 2007. • The use of Model Driven Architecture in the design of Laboratory Information Management Systems, Alexander Garcia, internal report, International Center for Tropical Agriculture, CIAT, Cali, Colombia, 2007. • Using Metadata to support intensive data-capture in Crop Information Systems, Alexander Garcia. Internal report. International Center for Tropical Agriculture, Cali, Colombia, 2006. • D. Kehagias, A. Garcia Castro, D. Tzovaras: “A Semantic web service alignment tool. ISWC-08 (International Semantic Web Conference), http://ftp.informatik.rwth-aachen.de/Publications/CEUR- WS/Vol-401/iswc2008pd_submission_58.pdf • D. Kehagias, D. Giakoumis, D. Tzovaras: “An ontology-based service-oriented application for mobility impaired users” ISWC-08 (International Semantic Web Conference), http://ftp.informatik.rwth- aachen.de/Publications/CEUR-WS/Vol-401/iswc2008pd_submission_63.pdf • A. Garcia-Castro, Angela Norena, Andres Betancourt, Leyla Jael Garcia, “CMAPS supporting the development of Ontologies”. ISWC-08(International Semantic Web Conference) http://ftp.informatik.rwth-aachen.de/Publications/CEUR-WS/Vol-401/iswc2008pd_submission_45.pdf

Other peer reviewed publications: journals, posters and technical reports from 1990 to 2000 • J YUNIS, EMILIO, HUMBERTO OSSA, ANTONIO DE LA HOZ, DORIS CASTRO,CONSTANZA GALVIS, ALEXANDER GARCIA,, YUNIS, J. J., YUNIS, JUAN J. Analysis and relationship of 16 Colombian Amerindian tribes based on Blood group typing In: 9th. International Congress of Human Genetics, 1996, Rio de Janeiro. Brazilian J of Genet. , 1996. v.19. p.150 – • J YUNIS, EMILIO, HUMBERTO OSSA,, ANTONIO DE LA HOZ,, DORIS CASTRO, CONSTANZA GALVIS,, ALEXANDER GARCIA,, YUNIS, J. J., YUNIS, JUAN J. Analysis and relationship of 16 Colombian Amerindian tribes based on Blood group typing In: The First European Symposium on Human Identification, 1996, Tolouse France, 1996. • YUNIS, J. J., YUNIS, JUAN J., ALFONSO SUAREZ,, HUMBERTO OSSA, ALEXANDER GARCIA,, J YUNIS, EMILIO, MHC DQA1 allele frequencies in Colombia In: 22nd Annual meeting, American Society for Histocompatibility and Immunogenetics, 1996, San Diego California. Human Immunology. Elsevier, 1996. • YUNIS, J. J., YUNIS, JUAN J., ALFONSO SUAREZ,, HUMBERTO OSSA, ALEXANDER GARCIA,, J YUNIS, EMILIO MHC DQA1 allele frequencies in Colombia In:The First European Symposium on Human Identification, Toulouse, 1996, Tolouse France, 1996. • YUNIS, J. J., YUNIS, JUAN J., ALFONSO SUAREZ,, HUMBERTO OSSA, ALEXANDER GARCIA,, J YUNIS, EMILIO MHC DQA1 allele frequencies in Colombia In:9th International Congress of Human Genetics, 1996, Rio de Janeiro Brasil. Brazilian Journal of Genet. , 1996. v.19. p.151 - • YUNIS, J. J., YUNIS, JUAN J., ALFONSO SUAREZ,, HUMBERTO OSSA, ALEXANDER GARCIA,, J YUNIS, EMILIO, MHC DQA1 allelle frequencies in Colombia. In: 12Th International Histocompatibility Workshop and Conference, 1996, Paris, France, 1996. • YUNIS, J. J., YUNIS, JUAN J., HUMBERTO OSSA,, ALFONSO SUAREZ, ALEXANDER GARCIA,, J YUNIS, EMILIO, MHC DQB1 allele frequencies in Colombia. In: 22nd Annual meeting, American Society for Histocompatibility and Immunogenetics, 1996, San Diego California. Human Immunology. Elsevier, 1996. • YUNIS, J. J., YUNIS, JUAN J., HUMBERTO OSSA,, ALFONSO SUAREZ, ALEXANDER GARCIA,, J YUNIS, EMILIO, MHC DQB1 allele frequencies in Colombia. In: The First European Symposium on Human Identification, Toulouse, 1996, Tolouse, France, 1996. • YUNIS, J. J., YUNIS, JUAN J., HUMBERTO OSSA,, ALFONSO SUAREZ, ALEXANDER GARCIA,, J YUNIS, EMILIO, MHC DQB1 allele frequencies in Colombia. In: 9th International Congress of Human Genetics, 1996, Rio de Janeiro, Brasil. Brazilian J of Genet. , 1996. v.19. p.151 - • YUNIS, J. J., YUNIS, JUAN J., HUMBERTO OSSA, ALFONSO SUAREZ,ALEXANDER GARCIA, J YUNIS, EMILIO, MHC DQB1 allelle frequencies in Colombia. In: 12Th International Histocompatibility Workshop and Conference, 1996, Paris France, 1996. • YUNIS, J. J., ALFONSO SUAREZ,, HUMBERTO OSSA,, ALEXANDER GARCIA, J YUNIS, EMILIO, MHC DQA1 allele frequencies in Colombia. Human Immunology. New York:, v.49, supplement, p.141 - , 1996.

Awards

The Elsevier Grand Challenge (http://www.elseviergrandchallenge.com/), semi finalist. Project: “A tale of two cities in the land of serendipity: The semantic web and the social web heading towards a living document in life sciences.” 2008.

Institute of Molecular Biology, University of Queensland 2003-2006, PhD scholarship Australian Center fro Functional Plant Genomics, 2004-2005

Best Australian poster, ISMB, Brisbane, 2003

Project coordination experience

“The Living Document”, The Elsevier Grand Challenge, semi finalist, 10 selected out of 70 candidates.

Project description: The Living Document was initially conceptualized within the publishing workflow in life sciences; it evolved into a semantic document knowledge management framework for which we aim to facilitate three aspects central to the semantic web vision: organize, share and discover. All these within the serendipity that is natural to the Semantic Web. This project has now two subprojects:

Subproject: The Living Document in Life Sciences, http://190.158.253.249:8080/LDProject/web/index.html This project aims to study how to use tags, automatic and manually produced, for facilitating knowledge discovery across digital libraries.

Subproject: TAGS4LAB, http://tags4lab.sourceforge.net This project aims to study how to manage knowledge across laboratory notebooks (both paper and electronic- based). Central to this project is the use of principles from folksonomies, semantic web and HCI.

Responsibilities: project leader and coordinator Dates: August 2008- August 2009 Collaborators: University of Bremen, Bremen, Germany. International Tropical Agriculture Center, CIAT, Cali, Colombia. ScietifiKa, Granada, Spain.

“Open architecture for Accessible Services Integration and Standardization” OASIS

Project description: OASIS aims to facilitate interoperability across service providers, mobile devices (wearable devices, phones, palm, etc) smart home technology and medical care providers for elderly and disabled population.

Responsibilities: co-coordination of activities related to the design and development of ontologies, ontology interoperability and methodological aspects of the project. Dates: April 2008 to April 2011. Present position University of Bremen, Bremen, Germany

“Laboratory Information Management System” (LIMS)

Project description: this project involved the use of wireless technology for data capture for biological investigation in functional plant genomics, the definition of ontologies and metadata for the annotation of biological investigations in functional plant genomics, and the generation of a web-based publishing mechanism that could interoperate (exchange information) with CIAT partners worldwide

Responsibilities: project coordination and software architecture designer, liaison officer for technical matter with software partners responsible for the development. Design and requirements definition. Development of metadata and ontologies for LIMS Dates: 2006-2007 International Tropical Agriculture Center, CIAT, Cali, Colombia

GUI4EASY Project description: The main aim of this project is to study how to best design effective GUIs. We have addressed two scenarios: the manipulation of OWL ontologies by non-ontology experts in a WEB based environment, and the manipulation of biological annotations as well as the definition of workflows in bioinformatics in a WEB based environment.

Subprojects: “OLS2OWL” (Ontology Look up service to OWL) Project description: the main aim of this project is to facilitate the definition of local repositories of OWL ontologies in Protégé. The software currently being implemented will facilitate the extraction of meaningful parts of ontologies, improving reusability Responsibilities: project coordination, software design. UML and rapid prototyping techniques were used. Dates: 2008-Present

Subprojects: MAP2OWL Project description: the main aim of this project was to simplify the development of ontologies by using conceptual maps –allowing non-experts to develop ontologies without knowing the complexity of the OWL language. Responsibilities: project coordination, software design, supervision of two under-graduate students in their final year (thesis work). Dates: 2007 This project was developed in collaboration with the Universidad Javeriana, Cali, Universidad de la Sabana, Bogotá, and the International Tropical Agriculture Center, CIAT, Cali, Colombia. TicTAGtoe

Project description: This project aims to study how to provide cognitive support for integrated OMICs environments. TicTAGToe makes extensive use of ontologies, Folksonomies, Semantic Web query languages and knowledge representation formalisms. This idea was initiated at the European Bioinformatics Institute in UK and has continued as collaboration with Rafael Jimenez –original DASTY2 creator. So far we have completed two subprojects: - OntoDAS, http://ontodas.nbn.ac.za/ Project description: The main aim of this project was to facilitate the constriction of ontology based queries against the Gene Ontology AMIGO MySQL database. Responsibilities: project coordination, supervision of one master student assigned to this project. Reporting to the University of KwaZulu-Natal (Head of School, CompSci), Proteomics Services - EBI (Team leader) and NBN (CEO). Dates: 2007 This project was developed for the UKZN at the EBI in collaboration with the NBN. - DASTY2, http://www.ebi.ac.uk/dasty/ Project description: a WEB 2.0 client for visualizing protein sequence feature information using DAS. Responsibilities: project coordination, supervision of one master student assigned to this project. Reporting to Proteomics services Team leader (EBI) and NBN (CEO). Dates: 2007 This project was developed in collaboration with the Proteomics Group at the EBI, Hinxton, England and the National Bioinformatics Institute, NBN, Cape Town, South Africa. - Tag4Gs Project description: Tag4Genomes is a Web Google ToolKit based visualization and annotation system. Tag4Gs facilitates the visualization and annotation of Prokaryote Genomes by using principles from Folksonomies; Tag4Gs has been designed for both, end users and specialized ontology curators. Responsibilities: project coordinator and designer. Dates: Currently under development - TAGSTY Project description: TAGSTY aims to provide a collaborative annotation environment for the Distributed Annotation System, DAS. TAGSTY supports both, free and ontology based tagging. Responsibilities: project coordinator and designer. Dates: currently under development. This project is currently being developed with the EBI Proteomics group (Rafael Jimenez), The University of Cape Town and The University of el Valle, Colombia Medical Image Annotator (MIA) Project description: The image annotator provides a community environment for the ontology-based annotation of radiological images. Responsibilities: Software design, ontology development, software beta tester. Dates: from 12/12/07, currently under development. Initially developed at I2R, Singapore. MIA is currently being developed at the University of Bremen.

Lipid ontology Project description: development of an ontology for lipids. Responsibilities: assistance in design and ontology development. Dates: from 12/01/07, currently under development. Dengue ontology Project description: development of an ontology for the description of Dengue. Responsibilities: assistance in design and ontology development. Dates: from 10/01/07 to 03/29/08.

Reasoning on biodiversity ontologies Project description: ontologizing GBIF metadata. Responsibilities: designer and ontology development. Dates: from 03/29/08, currently under development.

Supervised students

Department of Agricultural Sciences –Universidad Nacional de Colombia Master degree, to be awarded June 2010 Thesis title: “Knowledge Engineering over laboratory notebooks: A Semantic based approach for ELNs” Thesis author: Olga Ximena Giraldo URL: http://tags4lab.sourceforge.net

Department of Computer Science –Universidad Javeriana, Cali, Colombia Engineering degree, awarded on Feb. 2008 Thesis title: “Providing a direct manipulation interface to OWL constructs in Protégé” Thesis Author: Andres Betancourt, Angela Norena URL: http://map2owl.sourceforge.net/

Department of Computer Science – University of KwaZulu-Natal, South Africa Master degree, awarded on October 2007 Thesis title:” Relieving the Cognitive Load of Constructing Molecular Biological Ontology Based Queries by means of Visual Aids” Thesis Author: Kieran O'Neill Thesis accepted on October 2007 URL: http://ontodas.nbn.ac.za/ Department of Computer Science –UKZN, South Africa Master degree, awarded on October 2007 Thesis title: “Vector Graphics to improve BLAST graphic representations” Thesis author: Rafael Jimenez Thesis accepted on October 2007 Department of Biochemistry – University of Montpellier 2 Master degree, Diplome d'Etudes Supérieurs Spécialisées, awarded on November 2003 Thesis title: “GPipe, un générateur de workflow pour Pise” Thesis author: Samuel Thoraval Thesis accepted on November 2003 URL: http://www.pasteur.fr/recherche/unites/sis/Pise/

Software

1999, Win4RasMol URL: http://www.accefyn.org.co/agc/rasagc/rasagc.zip The main aim of this software is to hide the complexity of the command line interface in RASMOL by offering the user a set of windows menus that facilitate the manipulation of those molecules being viewed. This is no longer maintained. 2004, GPIPE URL http://www.pasteur.fr/recherche/unites/sis/Pise/ This is a workflow enactor for the Pasteur Institute Software Environment (PISE). It allows the definition of workflows over EMBOSS. No longer maintained. 2006, Laboratory Information Management System Not publicly available Developed between CIAT and Parquesoft. 2007 DASTY2 URL: http://www.ebi.ac.uk/dasty/ This is a protein annotation viewer. It offers the users several views of protein annotations. 2007 ONTODAS URL: http://ontodas.nbn.ac.za/ This is a Gene Ontology-based query builder for the Distributed Annotation System (DAS) 2007 MAP2OWL URL: http://map2owl.sourceforge.net/ Protégé plug-in. It allows the generation of Ontologies as concept maps 2008 The Living Document. Elsevier Grand Challenge semi-finalist. URL: http://190.158.253.249:8080/LDProject/web/index.html The Living Document (LD) is not one that is constantly being written, as in the wiki approach, but one that acts as an interconnection bus networking documents, by means of structured organized social tagging and existing ontologies. 2009 OLS2OWL URL: http://ols2owl.sourceforge.net Protege plug-in. It facilitates managing ontology repositories via Protege. Cali, Colombia

Work experience From 2000 to 2008

www.inmuno.org, from January 2002 until January 2003 EMBOSS/SRS/GCG administrator Help-desk LAN manager, UNIX administrator, Database developer (MySQL/PHP) Web Master Brisbane, Australia Institute for Molecular Biosciences, IMB. From September 2003 to December 2006 PhD candidate (degree awarded) Areas of research: • Methodologies for developing ontologies • Integration of information and software architecture in bioinformatics • Semantic Web and Web services in bioinformatics • Ontology engineer Internship at the European Bioinformatics Institute, EBI. Cambridge, UK. From January 2005 to Dec 2005. Cali, Colombia Internacional Centre for Tropical Agriculture, CIAT. From January 2006- January 2007 Post doctoral research fellow/Project coordinator. Ontology engineer, research activities. • Laboratory Information Management System (LIMS) project coordinator: this involved software design, UML modeling, web services, use of technology, metadata and ontology, use of wireless technology supporting data capture. Coordination and project management activities for the LIMS development. • Appointed supervisor for two undergraduate engineering thesis students Cape Town, South Africa National Bioinformatics Institute. February 2007- November 2007 Research Fellow. Developing ontologies on a community basis Advising on the use of ontologies for a Laboratory Information Management System • DASTY2 project coordinator (http://www.ebi.ac.uk/dasty/) • Supervision of: Two Master students Two intern undergraduate students • ONTODAS project coordinator Singapore I2R. From November 2007- March 2008 Research officer Research activities and areas of research: • Knowledge engineering • Developing ontologies for representing diseases. • Data Mining supporting the development of biomedical ontologies • Semantic web technology designer Bremen, Germany University of Bremen, present position, from April 2008 - Spatial and temporal ontologies within the OASIS, assistive technologies, project. - Developing and normalizing ontologies - Defining standards for the development of OASIS ontologies - Building conceptual models (Web services, software architectures, UML) for the OASIS project