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Ontology-based visualization of hierarchical neuroanatomical structures

Published: 06 October 2008 Publication History

Abstract

This work presents a method for generating intuitive visualizations for high-level user queries to an hierarchical surface-based neuroanatomical atlas. We combine a spreading activation approach for computing focus and context in an ontology with a specific level-of-detail strategy for hierarchical structures. We demonstrate our method on an atlas of the bee brain.

References

[1]
ALLEN INSTITUTE FOR BRAIN SCIENCE: Allen Brain Atlas, 2006.
[2]
BARD J.: Anatomical ontologies for model organisms: The fungi and animal. In Anatomy Ontologies for Bioinformatics. Principle and Practice, Albert Burger Duncan Davidson R. B., (Ed.). Springer, 2008.
[3]
BURGER A., DAVIDSON D., BALDOCK R.: Formalization of Mouse Embryo Anatomy. Bioinformatics 20, 2 (2004), 259-267.
[4]
BARD J., RHEE S., ASHBURNER M.: An ontology for cell types. Genome Biol. 20, 2 (2004), 259-267.
[5]
BRANDT R., ROHLFING T., RYBAK J., KROFCZIK S., MAYE A., WESTERHOFF M., HEGE H.- C., MENZEL R.: Three-Dimensional Average-Shape Atlas of the Honeybee Brain and Its Applications. The Journal of Comparative Neurology 492, 1 (2005), 1-19.
[6]
FONG L. L., LARSON S. D., GUPTA A., CONDIT C., BUG W. J., CHEN L., WEST R., LAMONT S., TERADA M., MARTONE M. E.: An ontology-driven knowledge environment for subcellular neuroanatomy. In CEUR Workshop Proceedings (2007), pp. 1613-0073.
[7]
HAUSER H.: Generalizing Focus+Context Visualization. PhD thesis, Vienna University of Technology, Mar. 2004.
[8]
HUNTER P., ROBBINS P., NOBLE D.: The IUPS human physiome project. Eur. J. of Physiology 445, 1 (2002), 1-9.
[9]
HARTMANN K., SCHLECHTWEG S., HELBING R., STROTHOTTE T.: Knowledge-Supported Graphical Illustration of Texts. In Proc. of International Working Conference on Advanced Visual Interfaces, AVI 2002 (2002), ACM Press, New York, pp. 300-307.
[10]
JU T.: Building a 3D Atlas of the Mouse Brain. PhD thesis, Rice University, April 2005.
[11]
KOSARA R.: Semantic Depth of Field - Using Blur for Focus + Context Visualization. PhD thesis, Institute of Computer Graphics and Algorithms, Vienna University of Technology, 2001.
[12]
LARSON S., MARTONE M.: Rule-based reasoning with a multi-scale neuroanatomical ontology. In CEUR Workshop Proceedings (2007), vol. 258.
[13]
MACKENZIE-GRAHAM A., LEE E.-F., DINOV I., BOTA M., SHATTUCK D., RUFFINS S., HENG Y., KONSTANTINIDIS F., PITIOT A., DING Y., HU G., JACOBS R., TOGA A.: A Multimodal, Multidimensional Atlas of the C57BL/6J Mouse Brain. J. Anatomy 204, 2 (2004), 93-102.
[14]
MARTONE M., ZASLAVSKY I., GUPTA A., MEMON A., TRAN J., WONG W., FONG L., LARSON S., ELLISMAN M.: Anatomy Ontologies for Bioinformatics. Computational Biology. Springer, 2008, ch. 13, pp. 267-286.
[15]
PREIM B., BARTZ D.: Visualization in Medicine: Theory, Algorithms, and Applications. Morgan Kaufmann, 2007, ch. 20.
[16]
PEREANU W., HARTENSTEIN V.: Digital Three-Dimensional Models of Drosophila Development. Curr. Opin. in Genetics & Development 14, 4 (2004), 382-391.
[17]
POMMERT A., SCHUBERT R., RIEMER M., SCHIEMANN T., TIEDE U., HOEHNE K. H.: Symbolic Modeling of Human Anatomy for Visualization and Simulation. In Proc. of SPIE. Visualization in Biomedical Computing (1994), vol. 2359, pp. 412-423.
[18]
RAUTEK P., BRUCKNER S., GRÖLLER M. E.: Interaction-Dependent Semantics for Illustrative Volume Rendering. In Proc. Eurographics / IEEE VGTC Symposium on Visualization (May 2008), vol. 27, pp. 847-854.
[19]
RUBIN D., DAMERON O., BASHIR Y., GROSSMAN D., DEV P., MUSEN M.: Using ontologies linked with geometric models to reason about penetrating injuries. Artif Intell Med 37, 3 (2006), 167-176.
[20]
ROSSE C., JR. J. L. V. M.: The foundation model of anatomy ontology. In Anatomy Ontologies for Bioinformatics. Principle and Practice, Albert Burger Duncan Davidson R. B., (Ed.). Springer, 2008.
[21]
STALLING D., WESTERHOFF M., HEGE H.- C.: Amira: A highly interactive system for visual data analysis. In The Visualization Handbook, Hansen C. D., Johnson C. R., (Eds.). Elsevier, 2005, ch. 38.
[22]
SMITH M. K., WELTY C., MCGUINNESS D. L.: OWL Web Ontology Language Guide, 2004.
[23]
VIOLA I., FEIXAS M., SBERT M., GRÖLLER M. E.: Importance-driven focus of attention. IEEE TVCG 12, 5 (2006), 933-940.
[24]
VIOLA I., GRÖLLER M. E.: Smart visibility in visualization. In Proc. of EG Workshop on Computational Aesthetics in Graphics, Visualization and Imaging (2005), L. Neumann M. Sbert B. G. W. P., (Ed.), pp. 209-216

Cited By

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  • (2017)Graphs in Scientific VisualizationComputer Graphics Forum10.1111/cgf.1280036:1(263-287)Online publication date: 1-Jan-2017
  • (2013)Contextualization and Personalization of Queries to Knowledge Bases Using Spreading ActivationProceedings of the 10th International Conference on Flexible Query Answering Systems - Volume 813210.1007/978-3-642-40769-7_58(671-682)Online publication date: 18-Sep-2013
  • (2010)Visual analysis of integrated resting state functional brain connectivity and anatomyProceedings of the 2nd Eurographics conference on Visual Computing for Biology and Medicine10.5555/2384037.2384047(57-64)Online publication date: 1-Jul-2010

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  1. Ontology-based visualization of hierarchical neuroanatomical structures

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      Published In

      cover image Guide Proceedings
      EG VCBM'08: Proceedings of the First Eurographics conference on Visual Computing for Biomedicine
      October 2008
      184 pages
      ISBN:9783905674132

      Sponsors

      • IRTG: DFG's International Research Training Group 1131
      • The Netherlands Organisation for Scientific Research: The Netherlands Organisation for Scientific Research
      • MeVis: MeVis Medical Solutions AG
      • Medis: Medis medical imaging systems bv
      • SIEMENS: Siemens Healthcare

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      Eurographics Association

      Goslar, Germany

      Publication History

      Published: 06 October 2008

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      Cited By

      View all
      • (2017)Graphs in Scientific VisualizationComputer Graphics Forum10.1111/cgf.1280036:1(263-287)Online publication date: 1-Jan-2017
      • (2013)Contextualization and Personalization of Queries to Knowledge Bases Using Spreading ActivationProceedings of the 10th International Conference on Flexible Query Answering Systems - Volume 813210.1007/978-3-642-40769-7_58(671-682)Online publication date: 18-Sep-2013
      • (2010)Visual analysis of integrated resting state functional brain connectivity and anatomyProceedings of the 2nd Eurographics conference on Visual Computing for Biology and Medicine10.5555/2384037.2384047(57-64)Online publication date: 1-Jul-2010

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