15. Hirotada FUJII Koh-ichi SAKATA, Yoshihiro KATSUMATA, Rikiya SATO, Makoto KINOUCHI, Masanori SOMEYA, Shin-ichiro MASUNAGA, Masato HAREYAMA, Harold M. SWARTZ, and Hiroshi HIRATA, ``Tissue oxygenation in a murine SCC VII tumor after X-ray irradiation as determined by EPR spectroscopy,'' Radiotherapy and Oncology, in press, 2007.
14. Makoto KINOUCHI and Ken KUROKAWA, ``tRNAfinder: A software system to find all tRNA genes in the DNA sequence based on the cloverleaf secondary structure,'' Journal of Computer Aided Chemistry, pp. 116-124, September 2006.
13. Takashi ABE, Hideaki SUGAWARA, Shigehiko KANAYA, Makoto KINOUCHI, and Toshimichi IKEMURA, ``Self-Organizing Map (SOM) unveils and visualizes hidden sequence characteristics of a wide range of eukaryote genomes,'' Gene, Vol. 365, pp. 27-34, January 2006.
12. Takashi ABE, Hideaki SUGAWARA, Makoto KINOUCHI, Shigehiko KANAYA, Toshimichi IKEMURA, ``Novel phylogenetic studies of genomic sequence fragments derived from uncultured microbe mixtures in environmental and clinical samples,'' DNA research, Vol. 12, pp. 281-290, October 2005.
11. Takashi ABE, Shigehiko KANAYA, Makoto KINOUCHI, Yuta ICHIBA, Tokio KOZUKI, and Toshimichi IKEMURA, ``Informatics for unveiling hidden genome signatures,'' Genome Research, Vol. 13, pp. 693-702, April 2003.
10. Atsushi FUKUSHIMA, Toshimichi IKEMURA, Makoto KINOUCHI, Taku OSHIMA, Yoshihiro KUDO, Hirotada MORI, and Shigehiko KANAYA, ``Periodicity in prokaryotic and eukaryotic genomes identified by power spectrum analysis,'' Gene, Vol. 300, pp. 203-211, October 2002.
9. Shigehiko KANAYA, Makato KINOUCHI, Takashi ABE, Yoshihiro KUDO, Yuko YAMADA, Tatsuya NISHI, Hirotada MORI, and Toshimichi IKEMURA, ``Analysis of codon usage diversity of bacterial genes with a self-organizing map: characterization of horizontally transferred genes with emphasis on E. coli O157 genome,'' Gene, Vol. 276, pp. 89-99, October 2001.
8. Shigehiko KANAYA, Yuko YAMADA, Makoto KINOUCHI, Yoshihiro KUDO, Toshimichi IKEMURA, ``Codon usage and tRNA genes in eukaryotes: Correlation of codon usage diversity with translation efficiency and with CG-dinucleotide usage as assess by multivariate analysis,'' Journal of Molecular Evolution, Vol. 53, No. 4, pp. 290-298, October 2001.
7. Shigehiko KANAYA, Makoto KINOUCHI, Masaru OODAIRA, and Yoshihiro KUDO, ``Species-specific diversity of genes in codon usage based on genomic informatics,'' Journal of Japan Society of Information and Knowledge, Vol. 10, No. 4, pp. 14-31, January 2001 (in Japanese).
6. Makoto KINOUCHI, Shigehiko KANAYA, and Yoshihiro KUDO, ``Detection of transfer RNA based on the cloverleaf secondary structure,'' Journal of Computer Aided Chemistry, Vol. 1, pp. 76-81, September 2000.
5. Yoshihumi UJIIE, Kouji SASAKI, Makoto KINOUCHI, Yoshihiro KUDO, and Shigehiko KANAYA, ``Prediction of proteolytic process based on N-terminal sequences and molecular weights by proteomics and proteome analysis,'' Journal of Computer Aided Chemistry, Vol. 1, pp. 82-88, September 2000.
4. Shigehiko KANAYA, Yoshihumi UJIIE, Katumi HASEGAWA, Takehiro SATO, Hayato IMADA, Makoto KINOUCHI, Yoshihiro KUDO, Tateaki OGATA, Hiroaki OHYA, Hitoshi KAMADA, Kenji ITAMOTO, and Kazuhiro KATSURA, ``Proteome analysis of Oncorhynchus species during embryogenesis,'' ELECTROPHORESIS 2000, Vol. 21, No. 9, pp. 1907-1913, May 2000.
3. Hideki KAGAWA, Makoto KINOUCHI, and Masafumi HAGIWARA, ``Image segmentation by artificial life approach using autonomous agents,'' Journal of Japan Society for Fuzzy Theory and Systems, Vol. 12, No. 1, pp. 176-184, February 2000 (in Japanese).
2. Makoto KINOUCHI and Masafumi HAGIWARA, ``Memorization of melodies using complex-valued recurrent neural network,'' Journal of Information Processing Society Japan, Vol. 39, No. 5, pp. 1232-1239, May 1998 (in Japanese).
1. Makoto KINOUCHI and Masafumi HAGIWARA, ``Learning temporal sequences by complex neurons with local feedback,'' The Journal of The Institute of Electrical Engineers of Japan, Vol. 116-C, No. 7, pp. 748-754, July 1996 (in Japanese).
36. Takashi ABE, Hideaki SUGAWARA, Shigehiko KANAYA, Makoto KINOUCHI, Yasaburo MATUURA, Heizo TOKUTAKA, and Toshimichi IKEMURA, ``A large-scale Self-Organizing Map (SOM) constructed with the Earth Simulator unveils sequence characteristics of a wide range of eukaryotic genomes,'' Workshop 2005 on Self-Organizing Maps (Paris, France), pp. 187-194, September 2005.
35. Takashi ABE, Toshimichi IKEMURA, Shigehiko KANAYA, Makoto KINOUCHI, and Hideaki SUGAWARA, ''A novel bioinformatics strategy for phylogenetic study of genomic sequence fragments: self-organizing map (SOM) of oligonucleotide frequencies,'' Workshop 2005 on Self-Organizing Maps (Paris, France), pp. 669-676, September 2005.
34. Takashi ABE, Toshimichi IKEMURA, Makoto KINOUCHI, Shigehiko KANAYA, and Hideaki SUGAWARA, ``A novel bioinformatics approach for microbial diversity of environmental samples on the basis of self-organizing map (SOM),'' The 13th Annual International conference on Intelligent Systems for Molecular Biology, The International Society for Computational Biology (Detroit, USA), June 2005.
33. Takashi ABE, Toshimichi IKEMURA, Tokio KOZUKI, Satoshi NAKAGAWA, Makoto KINOUCHI, Shigehiko KANAYA, and Hideaki SUGAWARA, ``A novel bioinformatics approach for phylogenetics analyses of environmental and clinical samples on the basis of self-organizing map (SOM),'' Human Genome Meeting 2005 (Kyoto, Japan), April 2005.
32. Makoto KINOUCHI and Yoshihiro KUDO, ``Detection of tRNA genes from DNA sequences of eukaryotes,'' The Fifteenth International Conference on Genome Informatics (Yokohama, Japan), pp. P113-1-2, December 2004.
31. Takashi ABE, Toshimichi IKEMURA, Tokio KOZUKI, Satoshi NAKAGAWA, Makoto KINOUCHI, Shigehiko KANAYA, and Hideaki SUGAWARA, ``A novel bioinformatics approach for genome analyses of environmental samples on the basis of self-organizing map (SOM),'' 16th International Genome Sequencing & Analysis (Washington, D.C., USA), September 2004.
30. Takashi ABE, Shigehiko KANAYA, Makoto KINOUCHI, Yoko KOSAKA, and Toshimichi IKEMURA, ``Novel bioinformatics for unveiling hidden characteristics in genome sequences and searching in silico for genetic signal sequences,'' The 8th World Multi-Conference on Systemics, Cybernetics and Informatics (Orlando, Florida, USA), pp. 105-112, July 2004.
29. Hirokazu NISHIO, Md. Altaf-Ul-Amin, Yukiko NAKAMURA, Takashi ABE, Makoto KINOUCHI, Toshimichi IKEMURA, K. KOBAYASHI, Naotake OGASAWARA, Shigehiko KANAYA, ``Gene classification based on expression profile using BL-SOM: suitability assessment of multivariate gene expression data to spherical and plain SOM by N-measure,'' The 8th World Multi-Conference on Systematics, Cybernetics and Informatics (Orlando, Florida, USA), pp. 597-604, July 2004.
28. Toshimichi IKEMURA, Takashi ABE, Makoto KINOUCHI, Yoshihiro KUDO, Satoshi NAKAGAWA, Tokio KOZUKI, Yoko KOSAKA, and Shigehiko KANAYA, ``Novel bioinformatics for unveiling hidden genome signatures: identification of horizontally transferred genes and metagenome analysis,'' International Workshop for Escherichia coli Towards New Biology in the 21st Century (Awaji, Japan), p. 52, October 2003.
27. Yoshihiro KUDO and Makoto KINOUCHI, ``Detection of bacterial class specific tRNA gene tandems,'' International Workshop for Escherichia coli Towards New Biology in the 21st Century (Awaji, Japan), p. 109, October 2003.
26. Makoto KINOUCHI and Yoshihiro KUDO, ``Fast learning algorithm for Self-Organizing Map,'' International Workshop for Escherichia coli Towards New Biology in the 21st Century (Awaji, Japan), p. 110, October 2003.
15. Takashi ABE, Satoshi NAKAGAWA, Tokio KOZUKI, Makoto KINOUCHI, Yoko KOSAKA, Shigehiko KANAYA, and Toshimichi IKEMURA, ''Novel bioinformatics for phylogenetic classifications of genomic sequences from uncultured microorganisms in environmental, clinical samples,'' The 6th International Marine Biotechnology Conference (Chiba, Japan), September 2003.
24. Makoto KINOUCHI and Yoshihiro KUDO, ``Much faster learning algorithm for Batch-Learning SOM and its application to Bioinformatics,'' Workshop on Self-Organizing Maps (Kitakyushu, Japan), pp. 107-111, September 2003.
22. Makoto KINOUCHI, Yuya SHIGA, and Yoshihiro KUDO, ``Introduction of virtual peptides as absolute indices in SOM for usage in bioinformatics,'' Workshop on Self-Organizing Maps (Kitakyushu, Japan), pp. 112-115, September 2003.
21. Takashi ABE, Shigehiko KANAYA, Atsushi FUKUSHIMA, Makoto KINOUCHI, Yoko KOSAKA, Tokio KOZUKI, and Toshimichi IKEMURA, ``Inter- and intra- species characterizations of eukaryotic genome sequences and in silico prediction of genetic signal sequences,'' The 5th International Workshop on Advanced Genomics (Yokohama, Japan), June 2003.
20. Takashi ABE, Shigehiko KANAYA, Makoto KINOUCHI, Nanayo ISHIHARA, Yoko KOSAKA, Tokio KOZUKI, Akira OHYAMA, and Toshimichi IKEMURA, ``Self-organizing maps reveal hidden genome characteristics on a single map analyzing 90 genomes of prokaryotes and eukaryotes'', Human Genome Meeting 2003 (Cancun, Mexico), April 2003.
19. Takashi ABE, Shigehiko KANAYA, Makoto KINOUCHI, Yuta ICHIBA, Tokio KOZUKI, and Toshimichi IKEMURA, ``A novel bioinformatic strategy for unveiling hidden genome signatures of eukaryotes: self-organizing map of oligonucleotide frequency,'' Genome Informatics, Vol. 13, pp. 12-20, December 2002.
18. Makoto KINOUCHI and Yoshihiro KUDO, ``Detection of tRNA genes with introns from DNA sequences of Archaea,'' Genome Informatics, Vol. 12, pp. 431-432, December 2001.
17. Atsushi FUKUSHIMA, Makoto KINOUCHI, Yoshihiro KUDO, Shigehiko KANAYA, Hirotada MORI, Toshimichi IKEMURA, ``Statistical analysis of genomic information: various periodicities in DNA sequence,'' Genome Informatics, Vol. 12, pp. 435-436, December 2001.
16. Makoto KINOUCHI, Takashi ABE, and Yoshihiro KUDO, ``Self-organizing mapping in codon usage diversity of bacterial genes,'' Joint Symposium on Bio-Sensing and Bio-Imaging (Yamagata, Japan), pp. 243-246, August 2001.
15. Kazuhiko KATSURA, Shigehiko KANAYA, Makoto KINOUCHI, Isao IOKA, Yoshihiro KUDO, and Tateaki OGATA, ``Detection of endocrine-disrupting activity for environmental materials by Salmonids,'' Joint Symposium on Bio-Sensing and Bio-Imaging (Yamagata, Japan), pp. 254-257, August 2001.
14. Shigehiko KANAYA, Makoto KINOUCHI, Takashi ABE, Yuko YAMADA, Yoshihiro KUDO, and Toshimichi IKEMURA, ``Species-specific diversity of codon usage based on multivariate analysis,'' The 6th International Symposium, The Graduate University for Advanced Studies (Hayama, Japan), March 2001.
13. Atsushi FUKUSHIMA, Makoto KINOUCHI, Shigehiko KANAYA, Yoshihiro KUDO, and Toshimichi IKEMURA, ``Statistical analysis of genomic information -- Long-range correlation in DNA sequences --,'' The 6th International Symposium, The Graduate University for Advanced Studies (Hayama, Japan), March 2001.
12. Makoto KINOUCHI, Takamitsu SAKAI, Shigehiko KANAYA, and Yoshihiro KUDO, ``Intron sequences of human mRNAs,'' The 6th International Symposium, The Graduate University for Advanced Studies (Hayama, Japan), March 2001.
11. Makoto KINOUCHI, Yuko YAMADA, Shigehiko KANAYA, Yoshihiro KUDO, and Toshimichi IKEMURA, ``Detection of tRNA genes in the complete genome sequence of unicellular and multicellular species,'' The 6th International Symposium, The Graduate University for Advanced Studies (Hayama, Japan), March 2001.
10. Yoshihumi UJIIE, Yoshihiro KUDO, Shigehiko KANAYA, and Makoto KINOUCHI, ``Architecture based on dipeptide usage by self-organizing mapping,'' The 6th International Symposium, The Graduate University for Advanced Studies (Hayama, Japan), March 2001.
9. Takashi ABE, Makoto KINOUCHI, Shigehiko KANAYA, Yoshihiro KUDO, and Toshimichi IKEMURA, ``Codon usage diversity of bacterial genes: An application of self-organization mapping for investigating origin of horizontal transfer genes,'' The 6th International Symposium, The Graduate University for Advanced Studies (Hayama, Japan), March 2001.
8. Makoto KINOUCHI, Shigehiko KANAYA, Toshimichi IKEMURA, and Yoshihiro KUDO, ``Detection of tRNA based on the cloverleaf secondary structure,'' Genome Informatics, Vol. 11, pp. 301-302, December 2000.
7. Atsushi FUKUSHIMA, Makoto KINOUCHI, Shigehiko KANAYA, Yoshihiro KUDO, and Toshimichi IKEMURA, ``Statistical analysis of genomic information -- Long-range correlation in DNA sequences --,'' Genome Informatics, Vol. 11, pp. 315-316, December 2000.
6. Takashi ABE, Shigehiko KANAYA, Makoto KINOUCHI, Yoshihiro KUDO, Hirotada MORI, Hideo MATSUDA, Carlos Del Carpio, and Toshimichi IKEMURA, ``Gene classification method based on batch-learning SOM,'' Genome Informatics, Vol. 10, pp. 314-315, December 1999.
5. Hideki KAGAWA, Makoto KINOUCHI, and Masafumi HAGIWARA, ``Image segmentation by artificial life approach using autonomous agents,'' 1999 International Joint Conference on Neural Networks (Washington, D.C., USA), pp. 4413-4418, July 1999.
4. Maki KATAOKA, Makoto KINOUCHI, and Masafumi HAGIWARA, ``Music information retrieval system using complex-valued recurrent neural networks,'' 1998 IEEE International Conference on Systems, Man, and Cybernetics (San Diego, California, USA), pp. 4290-4295, October 1998.
3. Mirai TABUSE, Makoto KINOUCHI, and Masafumi HAGIWARA, ``Recurrent neural network using mixture of experts for time series processing,'' 1997 IEEE International Conference on Systems, Man, and Cybernetics (Orlando, Florida, USA), pp. 536-541, October 1997.
2. Makoto KINOUCHI and Masafumi HAGIWARA, ``Memorization of melodies by complex-valued recurrent network ,'' 1996 IEEE International Conference on Neural Networks (Washington, D.C., USA), pp. 1324-1328, June 1996.
1. Makoto KINOUCHI and Masafumi HAGIWARA, ``Learning temporal sequences using complex neurons with local feedback,'' 1995 IEEE International Conference on Neural Networks (Perth, Australia), pp. 3165-3169, November 1995.
1. Akira HIROSE (Editor), ``Complex-Valued Neural Networks: Theories and Applications,'' World Scientific Publishing, pp. 205-226, November 2003.
Makoto Kinouchi kinouchi@yz.yamagata-u.ac.jp