Computer support for physiological cell modelling using an ontology on cell physiology

Takao Shimayoshi, Kazuhiro Komurasaki, Akira Amano, Takeshi Iwashita, Masanori Kanazawa, Tetsuya Matsuda

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

The development of electrophyslological whole cell models to support the understanding of biological mechanisms Is Increasing rapidly. Due to the complexity of biological systems, comprehensive cell models, which are composed of many Imported sub-models of functional elements, can get quite complicated as well, making computer modification difficult. Here, we propose a computer support to enhance structural changes of cell models, employing the markup languages CellML and our original PMSML (Physiological Model Structure Markup Language), In addition to a new ontology for cell physiological modelling. In particular, a method to make references from CellML files to the ontology and a method to assist manipulation of model structures using markup languages together with the ontology are reported. Using these methods three software utilities, Including a graphical model editor, are Implemented. Experimental results proved that these methods are effective for the modification of electrophyslological models.

Original languageEnglish
Title of host publication28th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS'06
Pages4171-4174
Number of pages4
DOIs
Publication statusPublished - Dec 1 2006
Externally publishedYes
Event28th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS'06 - New York, NY, United States
Duration: Aug 30 2006Sep 3 2006

Publication series

NameAnnual International Conference of the IEEE Engineering in Medicine and Biology - Proceedings
ISSN (Print)0589-1019

Other

Other28th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS'06
CountryUnited States
CityNew York, NY
Period8/30/069/3/06

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All Science Journal Classification (ASJC) codes

  • Signal Processing
  • Biomedical Engineering
  • Computer Vision and Pattern Recognition
  • Health Informatics

Cite this

Shimayoshi, T., Komurasaki, K., Amano, A., Iwashita, T., Kanazawa, M., & Matsuda, T. (2006). Computer support for physiological cell modelling using an ontology on cell physiology. In 28th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS'06 (pp. 4171-4174). [4030075] (Annual International Conference of the IEEE Engineering in Medicine and Biology - Proceedings). https://doi.org/10.1109/IEMBS.2006.260282