{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,22]],"date-time":"2026-09-22T14:16:11Z","timestamp":1790086571723,"version":"4.0.1"},"reference-count":36,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2005,3,24]],"date-time":"2005-03-24T00:00:00Z","timestamp":1111622400000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/2.0\/"},{"start":{"date-parts":[[2005,3,24]],"date-time":"2005-03-24T00:00:00Z","timestamp":1111622400000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/2.0\/"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["BMC Bioinformatics"],"abstract":"<jats:title>Abstract<\/jats:title><jats:sec>\n                        <jats:title>Background<\/jats:title>\n                        <jats:p>Improvements in technology have been accompanied by the generation of large amounts of complex data. This same technology must be harnessed effectively if the knowledge stored within the data is to be retrieved. Storing data in ontologies aids its management; ontologies serve as controlled vocabularies that promote data exchange and re-use, improving analysis.<\/jats:p>\n                        <jats:p>The Edinburgh Mouse Atlas Project stores the developmental stages of the mouse embryo in anatomy ontologies. This project is looking at the use of visual data overviews for intuitive analysis of the ontology data.<\/jats:p>\n                     <\/jats:sec><jats:sec>\n                        <jats:title>Results<\/jats:title>\n                        <jats:p>A prototype has been developed that visualises the ontologies using directed acyclic graphs in two dimensions, with the ability to study detail in regions of interest in isolation or within the context of the overview. This is followed by the development of a technique that layers individual anatomy ontologies in three-dimensional space, so that relationships across multiple data sets may be mapped using physical links drawn along the third axis.<\/jats:p>\n                     <\/jats:sec><jats:sec>\n                        <jats:title>Conclusion<\/jats:title>\n                        <jats:p>Usability evaluations of the applications confirmed advantages in visual analysis of complex data. This project will look next at data input from multiple sources, and continue to develop the techniques presented to provide intuitive identification of relationships that span multiple ontologies.<\/jats:p>\n                     <\/jats:sec>","DOI":"10.1186\/1471-2105-6-74","type":"journal-article","created":{"date-parts":[[2005,3,26]],"date-time":"2005-03-26T07:16:10Z","timestamp":1111821370000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":7,"title":["Providing visualisation support for the analysis of anatomy ontology data"],"prefix":"10.1186","volume":"6","author":[{"given":"Aba-Sah","family":"Dadzie","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Albert","family":"Burger","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2005,3,24]]},"reference":[{"issue":"8","key":"399_CR1","first-page":"261","volume":"14","author":"D Benton","year":"1996","unstructured":"Benton D: Bioinformatics \u2013 Principles and Potential of a New Multidisciplinary In Trends. Biotechnology 1996, 14(8):261\u2013272.","journal-title":"Biotechnology"},{"issue":"12","key":"399_CR2","doi-asserted-by":"publisher","first-page":"487","DOI":"10.1016\/S0167-7799(00)01510-9","volume":"18","author":"DR Gilbert","year":"2000","unstructured":"Gilbert DR, Schroeder M, van Helden J: Interactive Visualization and Exploration of Relationships between Biological Objects. Trends in Biotechnology 2000, 18(12):487\u2013494.","journal-title":"Trends in Biotechnology"},{"key":"399_CR3","first-page":"241","volume-title":"Proceedings of the Fifth International Conference on Intelligent Systems for Molecular Biology: Halkidiki","author":"AJ Robinson","year":"1996","unstructured":"Robinson AJ, Flores TP: Novel Techniques for Visualising Biological Information. In Proceedings of the Fifth International Conference on Intelligent Systems for Molecular Biology: Halkidiki. Edited by: Terry Gaasterland, Peter Karp, Kevin Karplus, Christos Ouzounis, Chris Sander, Alfonso Valencia. The AAAI Press; 1996:241\u2013249. 21\u201325 June, 1997"},{"issue":"2","key":"399_CR4","doi-asserted-by":"publisher","first-page":"180","DOI":"10.1093\/bioinformatics\/17.2.180","volume":"17","author":"RD Stevens","year":"2001","unstructured":"Stevens RD, Goble CA, Baker P, Brass A: A Classification of Tasks in Bioinformatics. Bioinformatics 2001, 17(2):180\u2013188.","journal-title":"Bioinformatics"},{"key":"399_CR5","volume-title":"Designing the User Interface: Strategies for Effective Human-Computer Interaction","author":"B Shneiderman","year":"1998","unstructured":"Shneiderman B: Designing the User Interface: Strategies for Effective Human-Computer Interaction. 3rd edition. Addison-Wesley; 1998.","edition":"3"},{"key":"399_CR6","doi-asserted-by":"publisher","first-page":"336","DOI":"10.1109\/VL.1996.545307","volume-title":"Proceedings of the 1996 IEEE Symposium on Visual Languages: Boulder","author":"B Shneiderman","year":"1996","unstructured":"Shneiderman B: The Eyes Have It: A Task By Data Type Taxonomy for Information Visualizations. In Proceedings of the 1996 IEEE Symposium on Visual Languages: Boulder. IEEE Computer Society; 1996:336\u2013343. 3\u20136 September, 1996"},{"key":"399_CR7","first-page":"11","volume-title":"Proceedings of the 2002 Annual Research Conference of the South African Institute of Computer Scientists and Information Technologists On Enablement Through Technology: Port Elizabeth","author":"J Wesson","year":"2002","unstructured":"Wesson J, Van Greunen D: Research Papers: Human-Computer Interaction, Visualization and Collaboration: Visualisation of Usability Data: Measuring Task Efficiency. Proceedings of the 2002 Annual Research Conference of the South African Institute of Computer Scientists and Information Technologists On Enablement Through Technology: Port Elizabeth 2002, 11\u201318."},{"key":"399_CR8","doi-asserted-by":"crossref","first-page":"33","DOI":"10.1145\/237091.237096","volume-title":"Proceedings of the 9th Annual ACM Symposium on User Interface Software and Technology: Seattle","author":"M Chalmers","year":"1996","unstructured":"Chalmers M, Ingram R, Pfranger C: Adding Imageability Features to Information Displays. In Proceedings of the 9th Annual ACM Symposium on User Interface Software and Technology: Seattle. ACM Press; 1996:33\u201339. 6\u20138 November, 1996"},{"issue":"2","key":"399_CR9","doi-asserted-by":"publisher","first-page":"153","DOI":"10.1111\/1467-8659.00235","volume":"17","author":"I Herman","year":"1998","unstructured":"Herman I, Delest M, Melan\u00e7on G: Tree Visualisation and Navigation Clues for Information Visualisation. Computer Graphics Forum 1998, 17(2):153\u2013165.","journal-title":"Computer Graphics Forum"},{"issue":"1","key":"399_CR10","doi-asserted-by":"publisher","first-page":"24","DOI":"10.1109\/2945.841119","volume":"6","author":"I Herman","year":"2000","unstructured":"Herman I, Melan\u00e7on G, Marshall MS: Graph Visualization and Navigation in Information Visualization: A Survey. IEEE Transactions on Visualization and Computer Graphics 2000, 6(1):24\u201343.","journal-title":"IEEE Transactions on Visualization and Computer Graphics"},{"key":"399_CR11","first-page":"80","volume-title":"Proceedings of 1998 Australasian Computer Human Interaction Conference: Adelaide","author":"HC Purchase","year":"1998","unstructured":"Purchase HC: The Effects of Graph Layout. In Proceedings of 1998 Australasian Computer Human Interaction Conference: Adelaide. Edited by: Calder P, Thomas B. IEEE Computer Society; 1998:80\u201386. 30 November \u2013 4 December 1998"},{"key":"399_CR12","doi-asserted-by":"publisher","first-page":"259","DOI":"10.1093\/bioinformatics\/btg400","volume":"20","author":"A Burger","year":"2004","unstructured":"Burger A, Davidson D, Baldock R: Formalization of Mouse Embryo Anatomy. Bioinformatics 2004, 20: 259\u2013267.","journal-title":"Bioinformatics"},{"key":"399_CR13","doi-asserted-by":"publisher","first-page":"29","DOI":"10.1109\/BIBE.2000.889586","volume-title":"Proceedings of the IEEE International Symposium on Bio-Informatics and Biomedical Engineering 2000: Arlington","author":"CJ Bult","year":"2000","unstructured":"Bult CJ, Richardson JE, Blake JA, Kadin JA, Ringwald M, Eppig JT, Baldarelli RM, Baya M, Beal JS, Begley DA, Boddy WJ, Bradt DW, Butler NE, Chu T, Corbani LE, Corradi J, Davisson MT, Garippa D, Glass LH, Grant PL, Hill DP, King BL, Krupke DM, Lennon-Pierce M, Lutz CM, Maltais LJ, Mani P, McCright I, McKenzie L, Naf D, Ormsby JE, Ramachandran S, Reed DJ, Shaw DR, Szauter P, Trombley LA: Mouse Genome Informatics in a New Age of Biological Inquiry. Proceedings of the IEEE International Symposium on Bio-Informatics and Biomedical Engineering 2000: Arlington 2000, 29\u201332. 8\u201310 November, 2000"},{"key":"399_CR14","doi-asserted-by":"crossref","first-page":"669","DOI":"10.1145\/142750.143082","volume-title":"Proceedings of the SIGCHI Conference on Human Factors in Computing Systems: Monterey","author":"B Shneiderman","year":"1992","unstructured":"Shneiderman B, Williamson C, Ahlberg C: Dynamic Queries: Database Searching by Direct Manipulation. In Proceedings of the SIGCHI Conference on Human Factors in Computing Systems: Monterey. ACM Press; 1992:669\u2013670."},{"key":"399_CR15","unstructured":"The Prot\u00e9g\u00e9; Ontology Editor and Knowledge Acquisition System[http:\/\/www-protege.stanford.edu\/]"},{"key":"399_CR16","unstructured":"Piccolo Home Page[http:\/\/www.cs.umd.edu\/hcil\/piccolo\/]"},{"key":"399_CR17","unstructured":"Walrus Graph Visualization Tool[http:\/\/www.caida.org\/tools\/visualization\/walrus]"},{"key":"399_CR18","unstructured":"Hypergraph[http:\/\/hypergraph.sourceforge.net\/]"},{"key":"399_CR19","unstructured":"VRMLgraph[http:\/\/vrmlgraph.i-scream.org.uk\/]"},{"key":"399_CR20","volume-title":"Java Platform Performance: Strategies and Tactics","author":"S Wilson","year":"2000","unstructured":"Wilson S, Kesselman J: Java Platform Performance: Strategies and Tactics. 1st edition. Addison-Wesley Pub Co; 2000.","edition":"1"},{"key":"399_CR21","volume-title":"Human-Computer Interaction","author":"J Preece","year":"1994","unstructured":"Preece J, Rogers Y, Sharp H, Benyon D, Holland S, Carey T: Human-Computer Interaction. Addison-Wesley; 1994."},{"key":"399_CR22","doi-asserted-by":"publisher","first-page":"309","DOI":"10.1385\/NI:1:4:309","volume":"1","author":"R Baldock","year":"2003","unstructured":"Baldock R, Bard J, Burger A, Burton N, Christiansen J, Feng G, Hill B, Houghton D, Kaufman M, Rao J, Sharpe J, Ross A, Stevenson P, Venkataraman S, Waterhouse A, Yang Y, Davidson D: EMAP and EMAGE: A Framework for Understanding Spatially Organised Data. Neuroinformatics 2003, 1: 309\u2013325.","journal-title":"Neuroinformatics"},{"key":"399_CR23","doi-asserted-by":"crossref","first-page":"46","DOI":"10.1145\/332306.332326","volume-title":"Proceedings of the Fourth Annual International Conference on Computational Molecular Biology 2000: Tokyo","author":"S Batzoglou","year":"2000","unstructured":"Batzoglou S, Pachter L, Mesirov J, Berger B, Lander ES: Human and Mouse Gene Structure: Comparative Analysis and Application to Exon Prediction. Proceedings of the Fourth Annual International Conference on Computational Molecular Biology 2000: Tokyo 2000, 46\u201353."},{"key":"399_CR24","volume-title":"The Manchester Bioinformatics Week: Ontology Workshop: Manchester","author":"A Burger","year":"2002","unstructured":"Burger A: Systematic Nomenclature for Embryo Anatomy. The Manchester Bioinformatics Week: Ontology Workshop: Manchester 2002. 23\u201328 March 2002"},{"key":"399_CR25","first-page":"9","volume-title":"The Standards and Ontologies for Functional Genomics (SOFG) Conference: Hinxton","author":"A Burger","year":"2002","unstructured":"Burger A: XSPAN: A Cross-Species Anatomy Network. The Standards and Ontologies for Functional Genomics (SOFG) Conference: Hinxton 2002, 9. 17\u201320 November 2002"},{"key":"399_CR26","volume-title":"Graphical Methods for Data Analysis","author":"JM Chambers","year":"1983","unstructured":"Chambers JM, Cleveland W, Kleiner B, Tukey P: Graphical Methods for Data Analysis. Wadsworth and Brooks\/Cole Publishing; 1983."},{"key":"399_CR27","doi-asserted-by":"crossref","unstructured":"Faulkner X Usability Engineering, Macmillan Press Ltd; 2000.","DOI":"10.1145\/343048.343076"},{"key":"399_CR28","doi-asserted-by":"publisher","first-page":"789","DOI":"10.1006\/ijhc.2000.0415","volume":"53","author":"M Graham","year":"2000","unstructured":"Graham M, Kennedy J, Benton D: Towards a Methodology for Developing Visualisations. International Journal of Human-Computer Studies 2000, 53: 789\u2013807.","journal-title":"International Journal of Human-Computer Studies"},{"key":"399_CR29","doi-asserted-by":"crossref","DOI":"10.1201\/9781498710411","volume-title":"Usability Evaluation in Industry","author":"PW Jordan","year":"1996","unstructured":"Jordan PW, Thomas B, Weerdmeester BA, McClelland IL: Usability Evaluation in Industry. Taylor & Francis; 1996."},{"key":"399_CR30","volume-title":"The Java(TM) Virtual Machine Specification","author":"T Lindholm","year":"1999","unstructured":"Lindholm T, Yellin F: The Java(TM) Virtual Machine Specification. 2nd edition. Addison-Wesley Pub Co; 1999.","edition":"2"},{"key":"399_CR31","doi-asserted-by":"publisher","first-page":"249","DOI":"10.1145\/97243.97281","volume-title":"Proceedings of the SIGCHI Conference on Human Factors in Computing Systems: Empowering People: Seattle","author":"J Nielsen","year":"1990","unstructured":"Nielsen J, Molich R: Heuristic Evaluation of User Interfaces. In Proceedings of the SIGCHI Conference on Human Factors in Computing Systems: Empowering People: Seattle Edited by: Jane Carrasco Chew, John Whiteside. 1990, 249\u2013256. April 01 \u2013 05, 1990"},{"key":"399_CR32","doi-asserted-by":"crossref","unstructured":"Nielsen J Usability Engineering, Academic Press, Inc; 1993.","DOI":"10.1016\/B978-0-08-052029-2.50007-3"},{"key":"399_CR33","volume-title":"A Guide to Usability: Human Factors in Computing","author":"J Preece","year":"1993","unstructured":"Preece J: A Guide to Usability: Human Factors in Computing. Addison-Wesley; 1993."},{"issue":"4","key":"399_CR34","doi-asserted-by":"publisher","first-page":"57","DOI":"10.1145\/255950.153577","volume":"36","author":"GG Robertson","year":"1993","unstructured":"Robertson GG, Card SK, Mackinlay JD: Information Visualization Using 3D Interactive Animation. Special Issue on Graphical User Interfaces. Communications of the ACM 1993, 36(4):57\u201371.","journal-title":"Communications of the ACM"},{"key":"399_CR35","volume-title":"Handbook of Usability Testing: How to Plan, Design, and Conduct Effective Tests","author":"J Rubin","year":"1994","unstructured":"Rubin J: Handbook of Usability Testing: How to Plan, Design, and Conduct Effective Tests. John Wiley & Sons, Inc; 1994."},{"key":"399_CR36","first-page":"164","volume-title":"VA Tech Proc of Third Annual Mid-Atlantic Human Factors Conference: Blacksburg","author":"L Slaughter","year":"1995","unstructured":"Slaughter L, Norman KL, Shneiderman B: Assessing Users' Subjective Satisfaction with the Information System for Youth Services (ISYS). VA Tech Proc of Third Annual Mid-Atlantic Human Factors Conference: Blacksburg 1995, 164\u2013170. 26\u201328 March, 1995"}],"container-title":["BMC Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1186\/1471-2105-6-74.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/article\/10.1186\/1471-2105-6-74\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1186\/1471-2105-6-74.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,10,7]],"date-time":"2024-10-07T12:09:24Z","timestamp":1728302964000},"score":1,"resource":{"primary":{"URL":"https:\/\/bmcbioinformatics.biomedcentral.com\/articles\/10.1186\/1471-2105-6-74"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2005,3,24]]},"references-count":36,"journal-issue":{"issue":"1","published-online":{"date-parts":[[2005,12]]}},"alternative-id":["399"],"URL":"https:\/\/doi.org\/10.1186\/1471-2105-6-74","relation":{},"ISSN":["1471-2105"],"issn-type":[{"value":"1471-2105","type":"electronic"}],"subject":[],"published":{"date-parts":[[2005,3,24]]},"assertion":[{"value":"18 August 2004","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"24 March 2005","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"24 March 2005","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}}],"article-number":"74"}}