ACGT Master Ontology (MO)
From IFOMIS
For general information on the EU-funded project "Advancing Clinico-Genomic Trials on Cancer" (ACGT) go here. [1]
The intention of the ACGT Master Ontology (MO) is to represent the domain of cancer research and management in a computationally tractable manner. The ACGT MO is built being maintained, using the Protégé-OWL free open-source ontology editor, Version 4 [2]. It is written in OWL-DL [3] and presented as an .owl file. The ACGT MO is re-using Basic Formal Ontology (BFO) [4] as upper level and the OBO Relation Ontology [5].
Contents |
Download
You can download the newest working version of ACGT MO from the link below.
ACGT Master Ontology [6]
Users of the ACGT MO
Biomedical Informatics Group, Artificial Intelligence Laboratory, School of Computer Science, Universidad Politécnica de Madrid, Madrid, Spain
eHealth Competence Centers, Universitätsklinikum Regensburg, Germany
Fraunhofer Institute for Biomedical Engineering, St. Ingbert, Germany
Institut Suisse de Bioinformatique, Switzerland
Institut Jules Bordet, Brussels, Belgium
Molecular Oncology Laboratories at the Weatherall Institute of Molecular Medicine, University of Oxford, United Kingdom
Paediatric Haematology and Oncology, Saarland University Hospital, Homburg, Germany
Siemens AG, Corporate Technology, Munich, Germany
Comments, Submission and Contact
The developers of the ACGT MO and the ACGT Consortium encourage comments and submissions to optimize and extend ACGT MO. If you have comments or questions or comments concerning the ACGT MO or if you want to submit proposals fur further classes, please contact one of the curators:
Dr. Mathias Brochhausen[7]: mathias.brochhausen@ifomis.uni-saarland.de
Cristian Cocos PhD: cristi@ieee.org
The ACGT Consortium aims to set up a maintenance system. Details on the development can be found under "Documentation".
Documentation
Media:ACGT Deliverable 7.1.pdf
Media:ACGT Deliverable 7.2.pdf
Media:ACGT_D7.7_IFOMIS_Final.pdf
Media:Progress Report MO February to July 2008.pdf
Media:ACGT Ontology Maintenance.pdf
The Basic Formal Ontology (BFO) Manual by A. D. Spears [8]
Training Course: An Introduction in Biomedical Ontologies by B. Smith. Streaming Video. [9]
Publications
Brochhausen M, Spear AD, Cocos C, Weiler G, Martìn L, Anguita A, Stenzhorn H, Daskalaki E, Schera F, Schwarz U, Sfakianakis S; Kiefer S, Dörr M, Graf N, Tsiknakis M (2010) The ACGT Master Ontology and Its Applications - Towards an Ontology-Driven Cancer Research and Management System. Journal of Biomedical Informatics. E-published ahead of print. DOI 10.1016/j.jbi.2010.04.008
Brochhausen M, Weiler G, Martin L, Cocos C, Stenzhorn H, Graf N, Dörr M, Tsiknakis M, Smith B, "Applications of the ACGT Master Ontology on Cancer," In: R. Meersman, Z. Tari, P. Herrero (eds.): OTM 2008 Workshops, LNCS 5333, 2008, 1046-1055.
Brochhausen M, Weiler G, Cocos C, Stenzhorn H, Graf N, Doerr M, Tsiknakis M, “The ACGT Master Ontology on Cancer - a New Terminology Source for Oncological Practice,” In: Puuronen S, Pechenizkiy M, Tsymbal A, Lee DJ (eds.): Proceedings of the 21st IEEE International Symposium on Computer-Based Medical Systems, 2008, IEEE Computer Society, Los Alamitos, 324-329.
Smith B, Brochhausen M, "Establishing and Harmonizing Ontologies in an Interdisciplinary Health Care and Clinical Research Environment". Health, Technology and Informatics, 134, 2008, 219-234. [10]
Tsiknakis M, Brochhausen M, Nabrzyski J, Pucaski J, Potamias G, Desmedt C, Kafetzopoulos D, “A semantic grid infrastructure enabling integrated access and analysis of multilevel biomedical data in support of post-genomic clinical trials on Cancer”, IEEE Transactions on Information Technology in Biomedicine, Special issue on Bio-Grids, 2008, Vol. 12, No. 2, pp. 205-217.
Weiler G, Brochhausen M, Graf N, Hoppe A, Schera F, Kiefer S, "Ontology Based Data Management Systems for post-genomic clinical Trials within an European Grid Infrastructure for Cancer Research", In: Proc of the 29th Annual International Conference of the IEEE EMBS, Lyon, France, August 23-26, 2007, pp. 6434-6437.
