1. Masato Masuya and Junta Doi, “Use of three-dimensional templates for multiple skeletons,” Proceedings of MVA'94 IAPR Workshop on Machine Vision Applications, pp. 293-296, 1994.
2. Masato Masuya and Junta Doi, “Detection and geometric modelling of molecular surfaces and cavities using mathematical morphological operations,” Journal of Molecular Graphics, vol. 13, pp. 331-336, 1995.
3. Masato Masuya and Junta Doi, “Extraction of Three-dimensional Multiple Skeletons and Digital Medial Skeleton,” IEICE Transactions on Information and Systems, vol.E78-D, no.12, pp. 1567-1572, December 1995.
4. Masato Masuya, Shape Analysis of Protein Molecule and Regand-Recepter Docking Studies Using Mathematical Morphology, Doctor Thesis, The University of Tokyo, 1996.(in Japanese)
5. Masato Masuya, ABC Graphics Suite Guide, Softbank Corp., ISBN4-7973-0201-1, Feb. 1997.(in Japanese)
6. Masato Masuya, Windows Draw Official Guide, Computer-Age, ISBN4-87566-160-6, Mar. 1997.(in Japanese)
7. Ulrich H. E. Hansmann, Masato Masuya and Yuko Okamoto, “Characteristic Temperatures of Folding of a Small Peptide,” Proceedings of the National Academy of Science of the United States of America, vol. 94, pp. 10652-10656, 1997.
8. Masato Masuya, Windows Web Server Kochiku Guide Kiso-hen, Active Server Pages Nyumon, Softbank Corp., ISBN4-7973-0505-3, Nov. 1997.(in Japanese)
9. Masato Masuya, Active Server Pages Kochiku-jutsu, Windows Web Server Kouchiku Guide Katsuyo-hen, Softbank Corp., ISBN4-7973-0654-8, Aug. 1998.(in Japanese)
10. Yuko Okamoto, Masato Masuya, Miho Nabeshima, and Takashi Nakazawa, “beta-Sheet Formation in BPTI(16-36) by Monte Carlo Simulated Annealing,” Chemical Physics Letters, vol. 299, No. 1, pp. 17-24, 1999.
11. M. Nishimura, S. Nakamura, N. Hayashi, M. Masuya, S. Asakawa, N. Shimizu, H. Kaku, A. Hasebe, and S. Kawasaki, “Analysis on Transposonable-Element Clustering Patterns in Magnaporthe Grisea Genome Using BAC Library,” in D. Tharreau, M.H. Lebrun, N.J. Talbot and J.L. Notteghem eds., Advances in Rice Blast Research , Kluwer academic publishers, Dordrecht, ISBN 0-7923-6257-8, 2000.
12. N. Nameda, M. Masuya, Y. Shimizu, and E. Hatae, “Easy Human Visual MTF Measurement” in C.Fotakis, T. Papazoglou and C. Kalpouzou eds., Optics and Lasers in Biomedicine and Culture, Springer Verlag, Berlin Heidelberg, ISBN 3-540-66648-6, pp. 260-263, 2000.
13. Masato Masuya and Shigenori Kagiyama, “Development of Course Registration Web Application,” Journal for Academic Computing and Networking, No. 5, pp. 31-42, 2001.(in Japanese)
14. Takashi Nakazawa, Sumiko Ban, Yuko Okada, Masato Masuya, Ayori Mitsutake, and Yuko Okamoto, “ A pH-dependent Variation in alpha-Helix Structure of the S-peptide of Ribonuclease A Studied by Monte Carlo Simulated Annealing,” Biopolymers, Vol. 63, pp. 273-279, 2002.
15. Masato Masuya, Hajimete no JavaScript, Softbank Publishing Corp., ISBN4-7973-1898-8, Jan. 2002.(in Japanese)
16. Giovanni La Penna, Ayori Mitsutake, Masato Masuya and Yuko Okamoto, “Molecular dynamics of C-peptide of ribonuclease A studied by replica-exchange Monte Carlo method and diffusion theory,” Chemical Physics Letters, Vol. 380, pp. 609-619, 2003.
17. Masato Masuya, Shinichiro Kubota, Kenji Aoki, Koichi Shimozono, “Enlightment Activities and Infrastructure Improvement of ICT for the Broadband Service Unavailable Area,” Journal for Academic Computing and Networking, No. 9, pp. 63-74, 2005.(in Japanese)
18. Shinichiro Kubota, Masaya Matsumoto, Masato Masuya, “Development and Evaluation of HDV Format High-Definition Digital Video Data Transmitting System,” Academic Information Processing Environment Research, Vol. 9, pp. 28-37, 2006.(in Japanese)
19. Shoh Ohyama, Masato Masuya, “Evaluation of satellite Internet service at open sea islands,” Information Technology Letters, Vol.6, pp.341-342, 2006.(in Japanese)
20. Masato Masuya, Takashi Yamanoue, Shinichiro Kubota, “An Experience of Monitoring University Network Security Using a Commercial Service and DIY Monitoring,” Association for Computing Machinery (ACM) Special Interest Group on University and College Computing Services (SIGUCCS) 2006 Fall Conference, Nov. 5-8, 2006.
21. 久保田真一郎, 田實浩一, 升屋正人, “教育用端末を用いた並列計算環境の構築と検証,” 大学情報システム環境研究, Vol. 10, pp. 83-90, 2007.(in Japanese)
22. Junta Doi, Kentaro Shimizu, Masato Masuya and Wataru Sato, “High-Density Reconstruction and CAD Technologies for Heritage and Archeological Artifacts,” 2007 IEEE International Symposium on Industrial Electronics Proceedings, pp. 1921-1926, Vigo, Spain, ISBN1-4244-0755-9, June 4-7, 2007.
23. Shinichiro Kubota, Koichi Shimozono, Youichiro Hozaki, Masato Masuya, “Relationship between network topology and TCP bandwidth on WDS networks,” Journal for Academic Computing and Networking, No. 11, in printing.(in Japanese)

Only English presentations are listed.

1. Masato Masuya and Yuko Okamoto, “Effective solvation energy of peptide and protein tertiary structures,” IMS International Confrence on “Electronic Structure and Reaction Dunamics”, March 17-20, 1997, Okazaki, Japan.
2. Masato Masuya and Yuko Okamoto, “Alpha-helix Folding of Human Parathyroid Hormone Fragment (1-37),” The Third Johns Hopkins Protein Folding Meeting, March 14-17, 1998, CoolFront Conference Center, WV, USA.
3. Masato Masuya, “Fast Calculation of Molecular Surface Area,” IMS International Workshop on Protein Stability and Folding, Jan 13-15, 1999, Okasaki, Japan.

In addtion to listed here, there has been ten Japanese oral/poster presentations and several writing for Japanese magazines, such as, DTP World (Works Corp.), MdN - Machintosh Designers Network (MdN Corp.), and WinGraphic (MdN Corp.).