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

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

doi:10.1109/iembs.2006.4398370

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

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

Research output: Contribution to journal › Article › peer-review

1 Citation (Scopus)

Abstract

The development of electrophysiological 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 electrophysiological models.

Original language	English
Pages (from-to)	4171-4174
Number of pages	4
Journal	Conference proceedings : ... Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Conference
DOIs	https://doi.org/10.1109/iembs.2006.4398370
Publication status	Published - 2006
Externally published	Yes

All Science Journal Classification (ASJC) codes

Signal Processing
Biomedical Engineering
Computer Vision and Pattern Recognition
Health Informatics

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10.1109/iembs.2006.4398370

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Takao, S., Kazuhiro, K., Akira, A., Takeshi, I., Masanori, K., & Tetsuya, M. (2006). Computer support for physiological cell modelling using an ontology on cell physiology. Conference proceedings : ... Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Conference, 4171-4174. https://doi.org/10.1109/iembs.2006.4398370

Computer support for physiological cell modelling using an ontology on cell physiology. / Takao, Shimayoshi; Kazuhiro, Komurasaki; Akira, Amano et al.
In: Conference proceedings : ... Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Conference, 2006, p. 4171-4174.

Research output: Contribution to journal › Article › peer-review

Takao, S, Kazuhiro, K, Akira, A, Takeshi, I, Masanori, K & Tetsuya, M 2006, 'Computer support for physiological cell modelling using an ontology on cell physiology.', Conference proceedings : ... Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Conference, pp. 4171-4174. https://doi.org/10.1109/iembs.2006.4398370

Takao S, Kazuhiro K, Akira A, Takeshi I, Masanori K, Tetsuya M. Computer support for physiological cell modelling using an ontology on cell physiology. Conference proceedings : ... Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Conference. 2006;4171-4174. doi: 10.1109/iembs.2006.4398370

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

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