List of publications



 Journal papers (peer reviewed)

   (*: Corresponding Author)
1. *Sato H., Shirakawa T., Masao Kubo,
Play style classification of the strong Mahjong players,
Int. J. Parallel Emergent Distrib. Syst. (accepted).

2. *Shirakawa T., Sugiyama N., Sato H., Sakurai K., Sato E.,
Gait analysis and machine learning classification on healthy subjects in normal walking,
Int. J. Parallel Emergent Distrib. Syst. (accepted).

3. *Shirakawa T., Sato H., Ishiguro S.,
Constrcution of living cellular automata using the Physarum plasmodium,
Int. J. Gen. Syst. 44, pp.292-304, 2015.

4. *Dang V. C., Kubo M., Sato H., Shirakawa T. and Namatame A.,
Occupancy grid map of semi-static objects by mobile observer,
Artif. Life Robotics 20, pp.7-12, 2015.

5. *Dang V. C., Kubo M., Sato H., Shirakawa T. and Namatame A.,
Anomaly stop detection by smartphone,
J. Robot. Netw. Artif. Life 1, pp.2-6, 2014.

6. *Tani I., Yamachiyo M., Shirakawa T. and Gunji Y.-P.,
Kanizsa illusory contours appearing in the plasmodium pattern of Physarum polycephalum,
Front. Cell. Infect. Microbiol. 4, pp.1-11, 2014.

7. Furuki H., Sato H. and *Shirakawa T.,
Fractal-based analysis for the energy consumption efficiency of biological networks,
J. Adv. Comput. Intell. Intell. Informat 17, pp.919-925, 2013.
(Selected from Proceeding of the 16th Asia Pacific Symposium on Intelligent and Evolutionary Systems and republished in the special issue on Latest Developments in Intelligent and Evolutionary Systems)

8. *Shirakawa T. and Sato H.,
Construction of molecular learning network,
J. Adv. Comput. Intell. Intell. Informat 17, pp.913-918, 2013.
(Selected from Proceeding of the 16th Asia Pacific Symposium on Intelligent and Evolutionary Systems and republished in the special issue on Latest Developments in Intelligent and Evolutionary Systems)

9. *Shirakawa T., Yokoyama K., Yamachiyo M., Gunji Y.-P. and Miyake Y.,
Multi-scaled adaptability in motility and pattern formation of the Physarum plasmodium,
Int. J. of Bio-Inspired Computation 4, pp.131-138, 2012.
(Selected from Proceeding of the 14th Asia Pacific Symposium on Intelligent and Evolutionary Systems and planned to be republished in the special issue on Intelligent and Evolutionary Systems, but with the cancellation of the special issue the paper has been republished in this regular issue.)

10. *Koji Sawa, Igor Balaž and Shirakawa T.,
Cell Motility Viewed as Softness,
Int. J. Artif. Life. Res. 3, pp.1-9, 2012.
(Selected from Proceeding of the 15th Asia Pacific Symposium on Intelligent and Evolutionary Systems and republished in the special issue on Bio-Inspired Computing and Underlying Biological Principles)

11. *Shirakawa T.,
Allometric Scaling Laws in the Exploratory Behavior of the Physarum Plasmodium,
Int. J. Artif. Life. Res. 3, pp.22-33, 2012.
(Selected from Proceeding of the 15th Asia Pacific Symposium on Intelligent and Evolutionary Systems and republished in the special issue on Bio-Inspired Computing and Underlying Biological Principles)

12. *Sonoda K., Kitamura E., Tani I., Shirakawa T. and Gunji Y.-P.,
Analyzing double image illusion through double indiscernibility and lattice theory,
tripleC 9, pp.510-519, 2011.

13. *Shirakawa T., Gunji Y.-P. and Miyake Y.,
An associative learning experiment using the plasmodium of Physarum polycephalum,
Nano Com. Net. 2, pp.99-105, 2011.
(Selected from Bionetics 2010: Proceedings of the 5th International ICST Conference on Bio-Inspired Models of Network, Information, and Computing Systems and republished in the special issue on Biological Information and Communication Technology)

14. *Gunji Y.-P., Shirakawa T. Niizato T., Yamachiyo Y. and Tani I.,
An adaptive and robust biological network based on the vacant-particle transportation model,
J. Theor. Biol. 272, pp.187-200, 2011.

15. *Niizato T., Shirakawa T. and Gunji Y.-P.,
A model of network formation by Physarum plasmodium: Interplay between cell motility and morphogenesis,
Biosystems 100, pp.108-112, 2010.

16. *Shirakawa T. and Gunji Y.-P.,
Computation of Voronoi diagram and collision-free path using the plasmodium of Physarum polycephalum,
Int. Journ. of Unconventional Computing 6, pp.79-88, 2010 (invited).

17. *Shirakawa T., Adamatzky A., Gunji Y.-P. and Miyake Y.,
On simultaneous construction of Voronoi diagram and Delaunay triangulation by Physarum polycephalum,
Int. J. Bifurcat. Chaos 19, pp.3109-3117, 2009.

18. *Adamatzky A., De Lacy Costello B. and Shirakawa T.,
Universal computation with limited resources: Belousov-Zhabotinsky and Physarum computers,
Int. J. Bifurcat. Chaos 18, pp.2373-2389, 2008 (our figure has been used in the journal cover).



19. *Gunji Y. -P., Shirakawa T., Niizato T., Haruna T. and Balaz I.,
Life driven by damaged damage,
Prog. Theore. Phys. Supp. 173, pp.26-37, 2008.

20. *Gunji Y. -P., Shirakawa T., Niizato T. and Haruna T.,
Minimal model of a cell connecting amoebic motion and adaptive transport networks,
J. Theor. Biol. 253, pp.659-667, 2008.

21. *Shirakawa T. and Gunji Y.-P.,
Emergence of morphological order in the network formation of Physarum polycephalum,
Biophys. Chem. 128, pp.253-260, 2007.

22. Shirakawa T., Nakamura A., Kohama K., Hirakata M. and *Ogihara S.,
Class-specific binding of two aminoacyl-tRNA synthetases to Annexin, a Ca2+- and phospholipid-binding protein,
Cell Struct. and Funct. 29, pp.159-164, 2005.



‎ Proceedings of International Conference (peer reviewed)

   (*: Corresponding Author)
1. *Sato H., Shirakawa T. and Kubo M.,
An Analysis of course evaluation questionnaire by machine learning,
Proceeding of the 12th International Conference of Numerical Analysis and Applied Mathematics,
The American Institute of Physics, pp. 580018: 1-4, 2015.

2. *Sato H., Shirakawa T. and Kubo M.,
Play style classification of the strong mahjong players,
Proceeding of the 12th International Conference of Numerical Analysis and Applied Mathematics,
The American Institute of Physics, pp. 580017: 1-4, 2015.

3. *Sato H., Shirakawa T., Kubo M. and Namatame A.,
The evolution of ordering strategies under damaged beer game,
Proceeding of the 12th International Conference of Numerical Analysis and Applied Mathematics,
The American Institute of Physics, pp. 580016: 1-4, 2015.

4. *Shirakawa T., Sugiyama N., Sato H., Sakurai K. and Sato E.,
Gait analysis and machine learning classification on healthy subjects in normal walking,
Proceeding of the 12th International Conference of Numerical Analysis and Applied Mathematics,
The American Institute of Physics , pp. 580009: 1-4, 2015.

5. *Sato H., Shirakawa T., Kubo M. and Namatame A.,
The impact of the malfunction of a sector in supply chain on the ordering policy of each sector,
Proceedings of the 18th Asia Pacific Symposium on Intelligent and Evolutionary Systems,
Springer, pp.625-634, 2014.

6. *Shirakawa T., Kamiura M., Takagi A. and Sato H.,
Analysis for the gait patterns of healthy subjects during march,
Procedia Computer Science 24,
Elsevier, pp.167-174, 2013.

7. Furuki H., Sato H. and *Shirakawa T.,
Fractal-Based Analysis for the Energy Consumption Efficiency of Biological Networks,
Proceeding of the 16th Asia Pacific Symposium on Intelligent and Evolutionary Systems,
IES2012 Committee, pp.187-192, 2012.

8. *Shirakawa T. and Sato H.,
Construction of Molecular Learning Network,
Proceeding of the 16th Asia Pacific Symposium on Intelligent and Evolutionary Systems,
IES2012 Committee, pp.111-116, 2012.

9. *Sato H., Shirakawa T., Kubo M. and Namatame A.,
Classification of Language Network by Bioinformatics Techniques,
Proceeding of the 16th Asia Pacific Symposium on Intelligent and Evolutionary Systems,
IES2012 Committee, pp.58-63, 2012.

10. *Shirakawa T., Konagano R. and Inoue K.,
Novel taxis of the Physarum plasmodium and a taxis-based simulation of Physarum swarm,
Proceeding of the 6th International Conference on Soft Computing and Intelligent Systems, and the 13th International Symposium on Advanced Intelligent Systems,
IEEE, pp.296-300, 2012.

11. *Yamachiyo M., Shirakawa T. and Gunji Y.-P.,
The Physarum Plasmodium Spontaneously Switches its Morphological Development Pattern,
Proceeding of the 15th Asia Pacific Symposium on Intelligent and Evolutionary Systems,
IES2011 Committee, pp.19-22, 2011.

12. *Koji Sawa, Igor Balaž and Shirakawa T.,
Cell Motility Viewed as Softness,
Proceeding of the 15th Asia Pacific Symposium on Intelligent and Evolutionary Systems,
IES2011 Committee, pp.44-48, 2011.

13. *Shirakawa T.,
Allometric Scaling Laws in the Exploratory Behavior of the Physarum Plasmodium,
Proceeding of the 15th Asia Pacific Symposium on Intelligent and Evolutionary Systems,
IES2011 Committee, pp.131-137, 2011.

14. *Shirakawa T. and Gunji Y.-P.,
Anticipatory aspect in the cell motility of Physarum plasmodium,
International Journal of Computing Anticipatory Systems, Volume 25. Evolution of Living Systems and Biophysics, Risk Management, Optimization, and Control; 7th BCSCMsG International Symposium. Partial Proceedings of the Ninth International Conference CASYS'09 on Computing Anticipatory Systems (Dubois, D. ed.) ,
CHAOS ASBL, pp.57-68, 2010.

15. *Shirakawa T., Gunji Y.-P. and Miyake Y.,
An associative learning experiment using the plasmodium of Physarum polycephalum,
Bionetics 2010: Proceedings of the 5th International ICST Conference on Bio-Inspired Models of Network, Information, and Computing Systems ,
Springer, 2010.

16. *Shirakawa T., Yokoyama K., Yamachiyo M., Gunji Y.-P. and Miyake Y.,
Multi-scaled adaptability in motility and pattern formation of the Physarum plasmodium,
Proceeding of the 14th Asia Pacific Symposium on Intelligent and Evolutionary Systems,
IES2010 Commitee, 2010.

17. *Shirakawa T. and Gunji Y.-P.,
Anticipatory behavior and intracellular communication in Physarum polycephalum,
COMPUTING ANTICIPATORY SYSTEMS; CASYSf05- Seventh International Conference (Dubois, D. ed.),
The American Institute of Physics, pp.541-546, 2006.

18. *Gunji Y.-P., Haruna T., Shirakawa T. and Sonoda K.,
Open limit; a wholeness with vagueness driving ver-handlung,
Endo-Physics, Time, Quantum and The Subjective (Buccheri R., Elizur A.C. and Saniga M. eds.),
World Scientific, pp.57-72, 2005.



‎ Review articles (peer reviewed)
1. Shirakawa T., Gunji Y. -P. and Komatsuzaki T.,
Cross talk between planetary science and nonlinear science: From chemical reactions to bio-computing,
Planetary People 16, 322-329, 2007 (in Japanese). [PDF]



‎ Books
1. Tomohiro Shirakawa,
Atlas of Physarum computing Chapter 4: Basic features of slime mould motility,
pp. 75-90, World Scientific, 2015.

2. Author: Pier Luigi Luisi, Translation: Tomohiro Shirakawa and Yukio-Pegio Gunji,
Emergence of Life: From Chemical Origins to Synthetic Biology,
NTT Publishing Co., Ltd., 2009. [Amazon]

3. Author: George V. Webster, Translation: Tomohiro Shirakawa,
Fundamental principles of osteopathic medicine,
Osteopathic Medicine Association, 2005.



‎ Patents
1. Shirakawa T., Tani I. and Miyake Y.,
Attractant and trap for harmful insects,
Japanese Patent Application No. 2009-093012, filed on April 7, 2009.




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