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MATSUDA Hideo

松田 秀雄

Professor

Education

  • 1984/04 - 1987/03, Kobe University, Graduate School of Science and Technology, Department of System Scicen
  • 1982/04 - 1984/03, Kobe University, Graduate School of Engineering, Department of Systems Engineering
  • 1978/04 - 1982/03, Kobe University, Faculty of Science, Department of Physics

Research History

  • 2002/04 - Present, Osaka University, Graduate School of Information Science and Technology Department of Bioinformatic Engineering, Professor
  • 1994/10 - 2002/03, Osaka University, School of Engineering Science Department of Information and Computer Sciences, Associate Professor
  • 1994/04 - 1994/09, Kobe University, Faculty of Engineering Department of Computer Science and Systems Engineering, Associate Professor
  • 1990/02 - 1994/03, Kobe University, Faculty of Engineering Department of Systems Engineering, Lecturer
  • 1987/04 - 1990/01, Kobe University, Faculty of Engineering Department of Systems Engineering, Research Assistant

Research Areas

  • Informatics, Biological, health, and medical informatics

Professional Memberships

  • 日本バイオインフォマティクス学会

Papers

  • Osteoclasts adapt to physioxia perturbation through DNA demethylation, Keizo Nishikawa,Shigeto Seno,Toshitada Yoshihara,Ayako Narazaki,Yuki Sugiura,Reito Shimizu,Junichi Kikuta,Reiko Sakaguchi,Norio Suzuki,Norihiko Takeda,Hiroaki Semba,Masamichi Yamamoto,Daisuke Okuzaki,Daisuke Motooka,Yasuhiro Kobayashi,Makoto Suematsu,Haruhiko Koseki,Hideo Matsuda,Masayuki Yamamoto,Seiji Tobita,Yasuo Mori,Masaru Ishii, EMBO reports, EMBO, No. e53035, 2021/10/18
  • SC-JNMF: single-cell clustering integrating multiple quantification methods based on joint non-negative matrix factorization, Mikio Shiga,Shigeto Seno,Makoto Onizuka,Hideo Matsuda, PeerJ, PeerJ, Vol. 9, p. e12087-e12087, 2021/08/27
  • A CNN-based cell tracking method for multi-slice intravital imaging data, Kenji Fujimoto,Tsubasa Mizugaki,Utkrisht Rajkumar,Hironori Shigeta,Shigeto Seno,Yutaka Uchida,Masaru Ishii,Vineet Bafna,Hideo Matsuda, Proceedings of the 12th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics, ACM, No. 35, p. 1-7, 2021/08
  • Detecting Lineage-Specific Marker Genes for Tumor Evolution Based on Single Cell Transcriptome, Kosho Murayama,Hideo Matsuda, International Journal of Bioscience, Biochemistry and Bioinformatics, International Academy Publishing (IAP), Vol. 11, No. 3, p. 50-57, 2021/07
  • SLPI is a critical mediator that controls PTH-induced bone formation, Akito Morimoto,Junichi Kikuta,Keizo Nishikawa,Takao Sudo,Maki Uenaka,Masayuki Furuya,Tetsuo Hasegawa,Kunihiko Hashimoto,Hiroyuki Tsukazaki,Shigeto Seno,Akira Nakamura,Daisuke Okuzaki,Fuminori Sugihara,Akinori Ninomiya,Takeshi Yoshimura,Ryoko Takao-Kawabata,Hideo Matsuda,Masaru Ishii, Nature Communications, Springer Science and Business Media LLC, Vol. 12, No. 1, p. 2136-2136, 2021/04
  • Determining homologous recombination deficiency scores with whole exome sequencing and their association with responses to neoadjuvant chemotherapy in breast cancer, Seung Jin Kim,Yoshiaki Sota,Yasuto Naoi,Keiichiro Honma,Naofumi Kagara,Tomohiro Miyake,Masafumi Shimoda,Tomonori Tanei,Shigeto Seno,Hideo Matsuda,Shinzaburo Noguchi,Kenzo Shimazu, Translational Oncology, Elsevier BV, Vol. 14, No. 2, p. 100986-100986, 2021/02
  • Glycerol kinase stimulates uncoupling protein 1 expression by regulating fatty acid metabolism in beige adipocytes., Mari Iwase,Soshi Tokiwa,Shigeto Seno,Takako Mukai,Yu-Sheng Yeh,Haruya Takahashi,Wataru Nomura,Huei-Fen Jheng,Sigenobu Matsumura,Tatsuya Kusudo,Naoki Osato,Hideo Matsuda,Kazuo Inoue,Teruo Kawada,Tsuyoshi Goto, The Journal of biological chemistry, Vol. 295, No. 20, p. 7033-7045, 2020/05/15
  • Anti-Inflammatory and Antioxidative Properties of Isoflavones Provide Renal Protective Effects Distinct from Those of Dietary Soy Proteins against Diabetic Nephropathy., Huei-Fen Jheng,Kanako Hayashi,Yasuki Matsumura,Teruo Kawada,Shigeto Seno,Hideo Matsuda,Kazuo Inoue,Wataru Nomura,Haruya Takahashi,Tsuyoshi Goto, Molecular nutrition & food research, Vol. 64, No. 10, 2020/05
  • Tracking and Analysis of FUCCI-Labeled Cells Based on Particle Filters and Time-to-Event Analysis, Kenji Fujimoto,Shigeto Seno,Hironori Shigeta,Tomohiro Mashita,Masaru Ishii,Hideo Matsuda, International Journal of Bioscience, Biochemistry and Bioinformatics, International Academy Publishing (IAP), Vol. 10, No. 2, p. 94-109, 2020/04
  • In vivo dynamic analysis of BMP-2-induced ectopic bone formation, Kunihiko Hashimoto,Takashi Kaito,Masayuki Furuya,Shigeto Seno,Daisuke Okuzaki,Junichi Kikuta,Hiroyuki Tsukazaki,Hideo Matsuda,Hideki Yoshikawa,Masaru Ishii, Scientific Reports, Vol. 10, No. 1, 2020/03/16
  • Long non-coding RNA 2310069B03Rik functions as a suppressor of Ucp1 expression under prolonged cold exposure in murine beige adipocytes., Mari Iwase,Shoko Sakai,Shigeto Seno,Yu-Sheng Yeh,Tony Kuo,Haruya Takahashi,Wataru Nomura,Huei-Fen Jheng,Paul Horton,Naoki Osato,Hideo Matsuda,Kazuo Inoue,Teruo Kawada,Tsuyoshi Goto, Bioscience, biotechnology, and biochemistry, Vol. 84, No. 2, p. 305-313, 2020/02
  • URH49 exports mRNA by remodeling complex formation and mediating the NXF1-dependent pathway., Ken-Ichi Fujita,Tomohiro Yamazaki,Kotaro Harada,Shigeto Seno,Hideo Matsuda,Seiji Masuda, Biochimica et biophysica acta. Gene regulatory mechanisms, Vol. 1863, No. 2, p. 194480-194480, 2020/01/07
  • Thrombomodulin induces anti-inflammatory effects by inhibiting the rolling adhesion of leukocytes in vivo, Shino Nishizawa,Junichi Kikuta,Shigeto Seno,Masahiro Kajiki,Ryuichi Tsujita,Hiroki Mizuno,Takao Sudo,Tomoka Ao,Hideo Matsuda,Masaru Ishii, Journal of Pharmacological Sciences, Vol. 1347-8613, No. 20, p. 30002-30005, 2020/01
  • Single-cell transcriptome analysis of mouse leukocytes in inflammatory stimulation, Naoki Osato,Hironori Shigeta,Shigeto Seno,Yutaka Uchida,Junichi Kikuta,Masaru Ishii,Hideo Matsuda, 2019 IEEE International Conference on Bioinformatics and Biomedicine (BIBM), IEEE, p. 1229-1231, 2019/11
  • Analyzing Leukocyte Migration Trajectories by Deformable Image Matching, Hironori Shigeta,Shigeto Seno,Shino Nishizawa,Yutaka Uchida,Junichi Kikuta,Masaru Ishii,Hideo Matsuda, IEEE 19th International Conference on Bioinformatics and Bioengineering (BIBE), p. 94-98, 2019/10
  • 生体蛍光観察動画像の深度を考慮した深層学習による細胞追跡精度の改善, 嶋田 彩人,瀬尾 茂人,繁田 浩功,間下 以大,内田 穣,石井 優,松田 秀雄, 情報処理学会論文誌数理モデル化と応用(TOM), Vol. 12, No. 2, p. 82-91, 2019/07
  • Improvement of detection performance of fusion genes from RNA-seq data by clustering short reads", Yoshiaki Sota,Shigeto Seno,Hironori Shigeta,Naoki Osato,Masafumi Shimoda,Shinzabro Noguchi,Hideo Matsuda, Journal of Bioinformatics and Computational Biology, Vol. 17, No. 3, p. 1940008-1940008, 2019/06
  • In vivo Multicolor Imaging with Fluorescent Probes Revealed the Dynamics and Function of Osteoclast Proton Pumps, Masafumi Minoshima,Junichi Kikuta,Yuta Omori,Shigeto Seno,Riko Suehara,Hiroki Maeda,Hideo Matsuda,Masaru Ishii,Kazuya Kikuchi, ACS Central Science, Vol. 5, No. 6, p. 1059-1066, 2019/06
  • DNN Models And Postprocessing Thresholds For Endoscopy Artifact Detection In Practice, Seiryo Watanabe,Shigeto Seno,Hideo Matsuda, CEUR Workshop Proceedings: the 2019 Challenge on Endoscopy Artefacts Detection (EAD2019), 2019/05
  • Asymmetric Integration of Single-Cell Transcriptomic Data using Latent Dirichlet Allocation and Procrustes Analysis, Mitsuhiro Eto,Wataru Hirota,Shigeto Seno,Hideo Matsuda, 2018 IEEE International Conference on Bioinformatics and Biomedicine (BIBM), IEEE, p. 2129-2135, 2018/12
  • Roles of Enhancer RNAs in RANKL-induced Osteoclast Differentiation Identified by Genome-wide Cap-analysis of Gene Expression using CRISPR, Yukako Sakaguchi,Keizo Nishikawa,Shigeto Seno,Hideo Matsuda,Hiroshi Takayanagi,Masaru Ishii, Scientific Reports, Nature Publishing Group, Vol. 8, No. 1, 2018/12/01
  • The dipeptidyl peptidase-4 (DPP-4) inhibitor teneligliptin enhances brown adipose tissue function, thereby preventing obesity in mice, Kenichiro Takeda,Honami Sawazaki,Haruya Takahashi,Yu-Sheng Yeh,Huei-Fen Jheng,Wataru Nomura,Takeshi Ara,Nobuyuki Takahashi,Shigeto Seno,Naoki Osato,Hideo Matsuda,Teruo Kawada,Tsuyoshi Goto, FEBS Open Bio, Vol. 8, No. 11, p. 1782-1793, 2018/09
  • 細胞画像のセグメンテーション精度向上のための画像類推を用いた学習データ拡張, 赤沢 秀樹,渡邊 誓旅,繁田 浩功,間下 以大,瀬尾 茂人,松田 秀雄, 第21回 画像の認識・理解シンポジウム(MIRU2018), 2018/08
  • Automated transition analysis of activated gene regulation during diauxic nutrient shift in Escherichia coli and adipocyte differentiation in mouse cells, Yoichi Takenaka,Kazuma Mikami,Shigeto Seno,Hideo Matsuda, BMC Bioinformatics, BioMed Central Ltd., Vol. 19, No. 89, p. 49-59, 2018/05/08
  • A Phytol-Enriched Diet Activates PPAR-α in the Liver and Brown Adipose Tissue to Ameliorate Obesity-Induced Metabolic Abnormalities, Ji-Yeong An,Huei-Fen Jheng,Hiroyuki Nagai,Kohei Sanada,Haruya Takahashi,Mari Iwase,Natsumi Watanabe,Young-Il Kim,Aki Teraminami,Nobuyuki Takahashi,Rieko Nakata,Hiroyasu Inoue,Shigeto Seno,Hideo Mastuda,Teruo Kawada,Tsuyoshi Goto, Molecular Nutrition and Food Research, Wiley-VCH Verlag, Vol. 62, No. 6, 2018/03/01
  • Chromatin 3D reconstruction from chromosomal contacts using a genetic algorithm, Viacheslav Kapilevich,Shigeto Seno,Hideo Matsuda,Yoichi Takenaka, IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2018/03
  • Direct cell-cell contact between mature osteoblasts and osteoclasts dynamically controls their functions in vivo., Masayuki Furuya,Junichi Kikuta,Sayumi Fujimori,Shigeto Seno,Hiroki Maeda,Mai Shirazaki,Maki Uenaka,Hiroki Mizuno,Yoriko Iwamoto,Akito Morimoto,Kunihiko Hashimoto,Takeshi Ito,Yukihiro Isogai,Masafumi Kashii,Takashi Kaito,Shinsuke Ohba,Ung-Il Chung,Alexander C Lichtler,Kazuya Kikuchi,Hideo Matsuda,Hideki Yoshikawa,Masaru Ishii, Nature Communications, Vol. 9, No. 1, p. 300-300, 2018/01/19
  • Detection of Fusion Genes from Human Breast Cancer Cell-line RNA-Seq Data Using Shifted Short Read Clustering, Yoshiaki Sota,Shigeto Seno,Hironori Shigeta,Naoki Osato,Masafumi Shimoda,Shinzaburo Noguchi,Hideo Matsuda, PROCEEDINGS 2018 IEEE 18TH INTERNATIONAL CONFERENCE ON BIOINFORMATICS AND BIOENGINEERING (BIBE), IEEE, p. 159-162, 2018
  • Diagnostic Assessment of Deep Learning Algorithms for Detection of Lymph Node Metastases in Women With Breast Cancer, Babak Ehteshami Bejnordi,Mitko Veta,Paul Johannes van Diest,Bram van Ginneken,Nico Karssemeijer,Geert Litjens,Jeroen A. W. M. van der Laak,Meyke Hermsen,Quirine F Manson,Maschenka Balkenhol,Oscar Geessink,Nikolaos Stathonikos,Marcory CRF van Dijk,Peter Bult,Francisco Beca,Andrew H Beck,Dayong Wang,Aditya Khosla,Rishab Gargeya,Humayun Irshad,Aoxiao Zhong,Qi Dou,Quanzheng Li,Hao Chen,Huang-Jing Lin,Pheng-Ann Heng,Christian Haß,Elia Bruni,Quincy Wong,Ugur Halici,Mustafa Ümit Öner,Rengul Cetin-Atalay,Matt Berseth,Vitali Khvatkov,Alexei Vylegzhanin,Oren Kraus,Muhammad Shaban,Nasir Rajpoot,Ruqayya Awan,Korsuk Sirinukunwattana,Talha Qaiser,Yee-Wah Tsang,David Tellez,Jonas Annuscheit,Peter Hufnagl,Mira Valkonen,Kimmo Kartasalo,Leena Latonen,Pekka Ruusuvuori,Kaisa Liimatainen,Shadi Albarqouni,Bharti Mungal,Ami George,Stefanie Demirci,Nassir Navab,Seiryo Watanabe,Shigeto Seno,Yoichi Takenaka,Hideo Matsuda,Hady Ahmady Phoulady,Vassili Kovalev,Alexander Kalinovsky,Vitali Liauchuk,Gloria Bueno,M. Milagro Fernandez-Carrobles,Ismael Serrano,Oscar Deniz,Daniel Racoceanu,Rui Venâncio, The Journal of the American Medical Association, American Medical Association (AMA), Vol. 318, No. 22, p. 2199-2199, 2017/12/12
  • Over-expression of PPAR alpha in obese mice adipose tissue improves insulin sensitivity, Haruya Takahashi,Kohei Sanada,Hiroyuki Nagai,Yongjia Li,Yumeko Aoki,Takeshi Ara,Shigeto Seno,Hideo Matsuda,Rina Yu,Teruo Kawada,Tsuyoshi Goto, BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS, ACADEMIC PRESS INC ELSEVIER SCIENCE, Vol. 493, No. 1, p. 108-114, 2017/11
  • Bone marrow cavity segmentation using graph-cuts with wavelet-based texture feature, Hironori Shigeta,Tomohiro Mashita,Junichi Kikuta,Shigeto Seno,Haruo Takemura,Masaru Ishii,Hideo Matsuda, JOURNAL OF BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, IMPERIAL COLLEGE PRESS, Vol. 15, No. 5, p. 1740004-1-1740004-16, 2017/10
  • The hepatokine FGF21 is crucial for peroxisome proliferator-activated receptor-alpha agonist-induced amelioration of metabolic disorders in obese mice, Tsuyoshi Goto,Mariko Hirata,Yumeko Aoki,Mari Iwase,Haruya Takahashi,Minji Kim,Yongjia Li,Huei-Fen Jheng,Wataru Nomura,Nobuyuki Takahashi,Chu-Sook Kim,Rina Yu,Shigeto Seno,Hideo Matsuda,Megumi Aizawa-Abe,Ken Ebihara,Nobuyuki Itoh,Teruo Kawada, JOURNAL OF BIOLOGICAL CHEMISTRY, AMER SOC BIOCHEMISTRY MOLECULAR BIOLOGY INC, Vol. 292, No. 22, p. 9175-9190, 2017/06
  • A simple comparison of the extrinsic noise in gene expression between native and foreign regulations in Escherichia coli, Bei-Wen Ying,Shigeto Seno,Hideo Matsuda,Tetsuya Yomo, BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS, ACADEMIC PRESS INC ELSEVIER SCIENCE, Vol. 486, No. 3, p. 852-857, 2017/05
  • Correlation between genome reduction and bacterial growth, Masaomi Kurokawa,Shigeto Seno,Hideo Matsuda,Bei-Wen Ying, DNA RESEARCH, OXFORD UNIV PRESS, Vol. 23, No. 6, p. 517-525, 2016/12
  • A Bone Marrow Cavity Segmentation Method using Wavelet-based Texture Feature, Hironori Shigeta,Tomohiro Mashita,Junichi Kikutat,Shigeto Seno,Haruo Takemura,Hideo Matsuda,Masaru Ishii, 2016 23RD INTERNATIONAL CONFERENCE ON PATTERN RECOGNITION (ICPR), IEEE COMPUTER SOC, p. 2133-2138, 2016
  • Proinflammatory cytokine interleukin-1 beta suppresses cold-induced thermogenesis in adipocytes, Tsuyoshi Goto,Supaporn Naknukool,Rieko Yoshitake,Yuki Hanafusa,Soshi Tokiwa,Yongjia Li,Tomoya Sakamoto,Takahiro Nitta,Minji Kim,Nobuyuki Takahashi,Rina Yu,Hiromi Daiyasu,Shigeto Seno,Hideo Matsuda,Teruo Kawada, CYTOKINE, ACADEMIC PRESS LTD- ELSEVIER SCIENCE LTD, Vol. 77, p. 107-114, 2016/01
  • Comparative Analysis of Transformation Methods for Gene Expression Profiles in Breast Cancer Datasets, Yoshiaki Sota,Shigeto Seno,Yoichi Takenaka,Shinzaburo Noguchi,Hideo Matsuda, 2016 IEEE 16TH INTERNATIONAL CONFERENCE ON BIOINFORMATICS AND BIOENGINEERING (BIBE), IEEE, p. 328-333, 2016
  • Functional specialization in regulation and quality control in thermal adaptive evolution, Kazuma Yama,Yuki Matsumoto,Yoshie Murakami,Shigeto Seno,Hideo Matsuda,Kazuyoshi Gotoh,Daisuke Motooka,Shota Nakamura,Bei-Wen Ying,Tetsuya Yomo, GENES TO CELLS, WILEY-BLACKWELL, Vol. 20, No. 11, p. 943-955, 2015/11
  • Detecting shifts in gene regulatory networks during time-course experiments at single-time-point temporal resolution, Yoichi Takenaka,Shigeto Seno,Hideo Matsuda, JOURNAL OF BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, IMPERIAL COLLEGE PRESS, Vol. 13, No. 5, 2015/10
  • Evolutionary Consequence of a Trade-Off between Growth and Maintenance along with Ribosomal Damages, Bei-Wen Ying,Tomoya Honda,Saburo Tsuru,Shigeto Seno,Hideo Matsuda,Yasuaki Kazuta,Tetsuya Yomo, PLOS ONE, PUBLIC LIBRARY SCIENCE, Vol. 10, No. 8, 2015/08
  • A Bone Marrow Recognition Method for Bone Tissue Images using Wavelet Transform, Hironori Shigeta,Tomohiro Mashita,Takeshi Kaneko,Junichi Kikuta,Shigeto Senoo,Haruo Takemura,Hideo Matsuda,Masaru Ishii, 2015/03
  • グラフカットを用いた骨髄腔画像の領域分割, 宇佐見 潤,繁田 浩功,間下 以大,黒田 嘉宏,菊田 順一,瀬尾 茂人,石井 優,松田 秀雄,竹村 治雄, 情報処理学会論文誌 数理モデル化と応用, Vol. 8, No. 1, p. 18-27, 2015/03
  • Directed evolution of cell size in Escherichia coli, Mari Yoshida,Saburo Tsuru,Naoko Hirata,Shigeto Seno,Hideo Matsuda,Bei-Wen Ying,Tetsuya Yomo, BMC EVOLUTIONARY BIOLOGY, BIOMED CENTRAL LTD, Vol. 14, No. 1, 2014/12
  • A Segmentation Method for Bone Marrow Cavity Image Using Graph-Cuts, Tomohiro Mashita,Jun Usami,Hironori Shigeta,Yoshihiro Kuroda,Junichi Kikuta,Shigeto Senoo,Masaru Ishii,Hideo Matsuda,Haruo Takemura, 2014/09
  • A Graph Cuts Image Segmentation Method for Quantifying Barrier Permeation in Bone Tissue, Hironori Shigeta,Tomohiro Mashita,Takeshi Kaneko,Junichi Kikuta,Shigeto Senoo,Haruo Takemura,Hideo Matsuda,Masaru Ishii, 2014/09
  • Metagenome fragment classification based onmultiple motif-occurrence profiles, Naoki Matsushita,Shigeto Seno,Yoichi Takenaka,Hideo Matsuda, PEERJ, PEERJ INC, Vol. 2, No. e559, 2014/09
  • Gene expression scaled by distance to the genome replication site, Bei-Wen Ying,Saburo Tsuru,Shigeto Seno,Hideo Matsuda,Tetsuya Yomo, MOLECULAR BIOSYSTEMS, ROYAL SOC CHEMISTRY, Vol. 10, No. 3, p. 375-379, 2014
  • 複数時系列遺伝子発現プロファイルを利用した遺伝子制御ネットワーク推定の精度向上手法, 渡邉之人,瀬尾茂人,竹中要一,松田秀雄, 情報処理学会論文誌 数理モデル化と応用, Vol. Vol.6, No.3, pp.151-162, 2013/12
  • 混合正規分布モデルを用いた経時観測蛍光画像からの細胞核の検出と追跡手法, 瀬尾茂人,間下以大,前田栄,竹中要一,石井優,松田秀雄, 情報処理学会論文誌数理モデル化と応用, Vol. 6, No. 3, p. 140-150, 2013/12
  • Integrative prediction of miRNA-mRNA interactions from high-throughput sequencing data, Tomoshige Ohno,Hiromi Daiyasu,Shigeto Seno,Yoichi Takenaka,Hideo Matsuda, RECOMB/ISCB Conference on Regulatory and Systems Genomics, with DREAM Challenges 2013, 2013/11
  • An estimation method for a cellular-state-specific gene regulatory network along tree-structured gene expression profiles, Ryo Araki,Shigeto Seno,Yoichi Takenaka,Hideo Matsuda, Gene, Vol. 518, No. 1, p. 17-25, 2013/04/10
  • Multilevel comparative analysis of the contributions of genome reduction and heat shock to the Escherichia coli transcriptome, Bei-Wen Ying,Shigeto Seno,Fuyuro Kaneko,Hideo Matsuda,Tetsuya Yomo, BMC GENOMICS, BIOMED CENTRAL LTD, Vol. 14, 2013/01
  • 多色蛍光イメージングによる経時観測データのための細胞追跡手法, 瀬尾茂人,間下以大,前田栄,竹中要一,石井優,松田秀雄, 2012/12
  • Estimate Dynamic Gene Regulatory Networks in Adipocyte Differentiation for Detecting Changes of Gene Regulations by Splitting Time Course Data, Tomoyoshi Nakayama,Yoshiyuki Kido,Hiromi Daiyasu,Shigeto Seno,Yoichi Takenaka,Hideo Matsuda, 23rd International Conference on Genome Informatics (GIW2012), 2012/12
  • Large-Scale Gene Regulatory Network Analysis for Adipocyte Differentiation on High-Performance Computer, Hideo Matsuda, 23rd International Conference on Genome Informatics, 2012/12
  • Automatic cell tracking for time-lapse fluorescent images of cell cycle, Shigeto Seno,Sakae Maeda,Tomohiro Mashita,Yoichi Takenaka,Masaru Ishii,Hideo Matsuda, 2012/10
  • Estimation of Dynamic Gene Regulatory Networks for Cell Differentiation by Splitting Time Course Data, Tomoyoshi Nakayama,Yoshiyuki Kido,Hiromi Daiyasu,Shigeto Seno,Yoichi Takenaka,Hideo Matsuda, 2012/10
  • A cell-tracking method for time-lapse multicolor fluorescent images, Shigeto Seno,Tomohiro Mashita,Yoichi Takenaka,Masaru Ishii,Hideo Matsuda, 2012/09
  • A Method for Isoform Prediction from RNA-Seq Data by Iterative Mapping, Tomoshige Ohno,Shigeto Seno,Yoichi Takenaka,Hideo Matsuda, Information Processing Society of Japan (IPSJ), Vol. 5, p. 27-33, 2012/04/19
  • An estimation method for inference of gene regulatory net-work using Bayesian network with uniting of partial problems, Yukito Watanabe,Shigeto Seno,Yoichi Takenaka,Hideo Matsuda, Series on Advances in Bioinformatics and Computational Biology, Imperial College Press, Vol. 13, 2012
  • A method for isoform prediction from RNA-seq data by iterative mapping, Tomoshige Ohno,Shigeto Seno,Yoichi Takenaka,Hideo Matsuda, IPSJ Transactions on Bioinformatics, Vol. 5, p. 27-33, 2012
  • An estimation method for inference of gene regulatory net-work using Bayesian network with uniting of partial problems, Yukito Watanabe,Shigeto Seno,Yoichi Takenaka,Hideo Matsuda, BMC GENOMICS, BIOMED CENTRAL LTD, Vol. 13, No. Suppl.1, 2012/01
  • INFERENCE OF S-SYSTEM MODELS OF GENE REGULATORY NETWORKS USING IMMUNE ALGORITHM, Tomoyoshi Nakayama,Shigeto Seno,Yoichi Takenaka,Hideo Matsuda, JOURNAL OF BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, IMPERIAL COLLEGE PRESS, Vol. 9, No. Suppl.1, p. 75-86, 2011/12
  • Perfect Hamming code with a hash table for faster genome mapping, Yoichi Takenaka,Shigeto Seno,Hideo Matsuda, BMC GENOMICS, BIOMED CENTRAL LTD, Vol. 12, 2011/11
  • A Crosstalk Model and an Estimation Method to Find Crosstalk Genes on Cell Differentiation, Hiroshi Yoshizawa,Shigeto Seno,Yoichi Takenaka,Hideo Matsuda, The Information Processing Society of Japan (IPSJ)Transactions on Mathematical Modeling and its Applications (TOM), 2011/11
  • Exploration of Potential Genomic Portraits Associated with Intrahepatic Recurrence in Human Hepatocellular Carcinoma, Nobuyoshi Kittaka,Ichiro Takemasa,Shigeto Seno,Yutaka Takeda,Shogo Kobayashi,Shigeru Marubashi,Keizo Dono,Koji Umeshita,Hiroaki Nagano,Hideo Matsuda,Morito Monden,Masaki Mori,Yuichiro Doki, ANNALS OF SURGICAL ONCOLOGY, SPRINGER, Vol. 17, No. 12, p. 3145-3154, 2010/12
  • A Metadata Management System for Composing Bioinformatics Workflows, Takuya Ishibashi,Yoshiyuki Kido,Takanori Fukumoto,Shigeto Seno,Yoichi Takenaka,Hideo Matsuda, 9th International Conference on Bioinformatics (InCoB2010), 2010/09
  • Gene Expression Profile Prospectively Predicts Peritoneal Relapse After Curative Surgery of Gastric Cancer, Atsushi Takeno,Ichiro Takemasa,Shigeto Seno,Makoto Yamasaki,Masaaki Motoori,Hiroshi Miyata,Kiyokazu Nakajima,Shuji Takiguchi,Yoshiyuki Fujiwara,Toshiro Nishida,Toshitsugu Okayama,Kenichi Matsubara,Yoichi Takenaka,Hideo Matsuda,Morito Monden,Masaki Mori,Yuichiro Doki, ANNALS OF SURGICAL ONCOLOGY, SPRINGER, Vol. 17, No. 4, p. 1033-1042, 2010/04
  • Improved prediction method for protein interactions using both structural and functional characteristics of proteins, Tatsuya Yoshikawa,Shigeto Seno,Yoichi Takenaka,Hideo Matsuda, IPSJ Transactions on Bioinformatics, Vol. 3, No. 2, p. 10-23, 2010
  • A Method for Efficient Execution of Bioinformatics Workflows, Junya Seo,Yoshiyuki Kido,Shigeto Seno,Yoichi Takenaka,Hideo Matsuda, Genome Informatics, Vol. 23, p. 139-148, 2009/12
  • Gendoo: Functional profiling of gene and disease features using MeSH vocabulary, Takeru Nakazato,Hidemasa Bono,Hideo Matsuda,Toshihisa Takagi, NUCLEIC ACIDS RESEARCH, OXFORD UNIV PRESS, Vol. 37, p. W166-W169, 2009/07
  • The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line., Harukazu Suzuki,Alistair R R Forrest,Erik van Nimwegen,Carsten O Daub,Piotr J Balwierz,Katharine M Irvine,Timo Lassmann,Timothy Ravasi,Yuki Hasegawa,Michiel J L de Hoon,Shintaro Katayama,Kate Schroder,Piero Carninci,Yasuhiro Tomaru,Mutsumi Kanamori-Katayama,Atsutaka Kubosaki,Altuna Akalin,Yoshinari Ando,Erik Arner,Maki Asada,Hiroshi Asahara,Timothy Bailey,Vladimir B Bajic,Denis Bauer,Anthony G Beckhouse,Nicolas Bertin,Johan Björkegren,Frank Brombacher,Erika Bulger,Alistair M Chalk,Joe Chiba,Nicole Cloonan,Adam Dawe,Josee Dostie,Pär G Engström,Magbubah Essack,Geoffrey J Faulkner,J Lynn Fink,David Fredman,Ko Fujimori,Masaaki Furuno,Takashi Gojobori,Julian Gough,Sean M Grimmond,Mika Gustafsson,Megumi Hashimoto,Takehiro Hashimoto,Mariko Hatakeyama,Susanne Heinzel,Winston Hide,Oliver Hofmann,Michael Hörnquist,Lukasz Huminiecki,Kazuho Ikeo,Naoko Imamoto,Satoshi Inoue,Yusuke Inoue,Ryoko Ishihara,Takao Iwayanagi,Anders Jacobsen,Mandeep Kaur,Hideya Kawaji,Markus C Kerr,Ryuichiro Kimura,Syuhei Kimura,Yasumasa Kimura,Hiroaki Kitano,Hisashi Koga,Toshio Kojima,Shinji Kondo,Takeshi Konno,Anders Krogh,Adele Kruger,Ajit Kumar,Boris Lenhard,Andreas Lennartsson,Morten Lindow,Marina Lizio,Cameron Macpherson,Norihiro Maeda,Christopher A Maher,Monique Maqungo,Jessica Mar,Nicholas A Matigian,Hideo Matsuda,John S Mattick,Stuart Meier,Sei Miyamoto,Etsuko Miyamoto-Sato,Kazuhiko Nakabayashi,Yutaka Nakachi,Mika Nakano,Sanne Nygaard,Toshitsugu Okayama,Yasushi Okazaki,Haruka Okuda-Yabukami,Valerio Orlando,Jun Otomo,Mikhail Pachkov,Nikolai Petrovsky,Charles Plessy,John Quackenbush,Aleksandar Radovanovic,Michael Rehli,Rintaro Saito,Albin Sandelin,Sebastian Schmeier,Christian Schönbach,Ariel S Schwartz,Colin A Semple,Miho Sera,Jessica Severin,Katsuhiko Shirahige,Cas Simons,George St Laurent,Masanori Suzuki,Takahiro Suzuki,Matthew J Sweet,Ryan J Taft,Shizu Takeda,Yoichi Takenaka,Kai Tan,Martin S Taylor,Rohan D Teasdale,Jesper Tegnér,Sarah Teichmann,Eivind Valen,Claes Wahlestedt,Kazunori Waki,Andrew Waterhouse,Christine A Wells,Ole Winther,Linda Wu,Kazumi Yamaguchi,Hiroshi Yanagawa,Jun Yasuda,Mihaela Zavolan,David A Hume,Takahiro Arakawa,Shiro Fukuda,Kengo Imamura,Chikatoshi Kai,Ai Kaiho,Tsugumi Kawashima,Chika Kawazu,Yayoi Kitazume,Miki Kojima,Hisashi Miura,Kayoko Murakami,Mitsuyoshi Murata,Noriko Ninomiya,Hiromi Nishiyori,Shohei Noma,Chihiro Ogawa,Takuma Sano,Christophe Simon,Michihira Tagami,Yukari Takahashi,Jun Kawai,Yoshihide Hayashizaki, Nature genetics, 5, Vol. 41, No. 5, p. 553-62, 2009/05
  • A Method for Reducing Bounds of Compound Search by Dividing Structure Key, Takashi Shimizu,Yoshiyuki Kido,Shigeto Seno,Yoichi Takenaka,Hideo Matsuda, The Proceedings of the 2008 Annual Conference of the Japanese Society for Bioinformatics, 2008/12
  • A Method for Making a New Reference Set of PDB Entries for Retrieving Protein 3D Structures with Structural Annotations, Masahiko Hamada,Yoshiyuki Kido,Shigeto Seno,Hiromi Daiyasu,Yoichi Takenaka,Hideo Matsuda, The Proceedings of the 2008 Annual Conference of the Japanese Society for Bioinformatics, 2008/12
  • An Architecture of Modeling Data Search using Ontology and Meta-Ontology, Yoshiyuki Kido,Yoshiyuki Asai,Taishin Nomura,Yoshihisa Kurachi,Hideo Matsuda, The 3rd MEI International SymposiumPhysiome and Systems Biology for IntegratedLife Sciences and Predictive Medicine, 2008/12
  • A Combination Method of the Tanimoto Coefficient and Proximity Measure of Random Forest for Compound Activity Prediction, Gen Kawamura,Shigeto Seno,Yoichi Takenaka,Hideo Matsuda, IPSJ Transactions on Bioinformatics, Vol. 49, No. 5, p. 46-57, 2008/03
  • A Distributed-Processing System for Accelerating Biological Research using Data-Staging, Yoshiyuki Kido,Shigeto Seno,Susumu Date,Yoichi Takenaka,Hideo Matsuda, IPSJ Transactions on Bioinformatics, Vol. 49, No. 5, p. 58-64, 2008/03
  • Compound-transporter interaction studies using canonical correlation analysis, Masato Kitajima,Yohsuke Minowa,Hideo Matsuda,Yasushi Okuno, Chem-Bio Informatics Journal, Vol. 7, No. 2, p. 24-34, 2008/01/12
  • BioCompass: A novel functional inference tool that utilizes MeSH hierarchy to analyze groups of genes, Takeru Nakazato,Toru Takinaka,Hironori Mizuguchi,Hideo Matsuda,Hidemasa Bono,Minoru Asogawa, In Silico Biology, 1, Vol. 8, No. 1, p. 53-61, 2008
  • A novel, simple, high-throughput method for isolation of genome-wide transposon insertion mutants of Escherichia coli K-12., Miki T,Yamamoto Y,Matsuda H, Methods in molecular biology (Clifton, N.J.), Vol. 416, p. 195-204, 2008
  • A Method for Retrieving Functionally Similar Bioinformatics Workflows, Junya Seo,Shigeto Seno,Yoichi Takenaka,Hideo Matsuda, Proceedings of 2007 Annual Conference of Japanese Society for Bioinformatics, 2007/12
  • Tissue-specific functions based on information content of gene ontology using cap analysis gene expression, Sami Maekawa,Atsuko Matsumoto,Yoichi Takenaka,Hideo Matsuda, MEDICAL & BIOLOGICAL ENGINEERING & COMPUTING, SPRINGER HEIDELBERG, Vol. 45, No. 11, p. 1029-1036, 2007/11
  • Retrieving Functionally Similar Bioinformatics Workflows using TF-IDF Filtering., Junya Seo,Shigeto Seno,Yoichi Takenaka,Hideo Matsuda, IPSJ Transactions on Bioinformatics, Vol. 2007, No. 128, p. 259-266, 2007/03
  • GO based tissue specific functions of mouse using countable gene expression profiles, Yoichi Takenaka,Akit Matsumoto,Hideo Matsuda, GENOME INFORMATICS 2007, VOL 19, IMPERIAL COLL PRESS, Vol. 19, p. 154-+, 2007
  • Inference of transcriptional regulatory networks using CAGE transcriptome dataset of Mus musculus, Kohei Taki,Yoichi Takenaka,Hideo Matsuda, WORLD CONGRESS ON MEDICAL PHYSICS AND BIOMEDICAL ENGINEERING 2006, VOL 14, PTS 1-6, SPRINGER-VERLAG BERLIN, Vol. 14, p. 187-190, 2007
  • A method for exploring Tissue-Specific Functions based on Information Content of Gene Ontology Terms using CAGE tags, Sami Maekawa,Atsuko Matsumoto,Yoichi Takenaka,Hideo Matsuda, WORLD CONGRESS ON MEDICAL PHYSICS AND BIOMEDICAL ENGINEERING 2006, VOL 14, PTS 1-6, SPRINGER-VERLAG BERLIN, Vol. 14, p. 163-+, 2007
  • nference of Gene Regulatory Networks from Gene-expression Profiles with Utilization of Biclustering Results, Kohei Taki,Yoichi Takenaka,Hideo Matsuda, IPSJ Transactions on Mathematical Modeling and Its Applications, Vol. 47, No. 14, p. 118-128, 2006/10
  • Extraction of Functionally Similar Bioinformatics Workflows, Junya Seo,Shigeto Senoo,Yoichi Takenaka,Hideo Matsuda, 6th International Workshop on Distibuted Applications, Web Services, Tools and GRID Infrastructures for Bioinformatics (NETTAB 2006), 2006/07
  • A method for similarity search of genomic positional expression using CAGE, Shigeto Seno,Yoichi Takenaka,Chikatoshi Kai,Jun Kawai,Piero Carninci,Yoshihide Hayashizaki,Hideo Matsuda, PLOS GENETICS, PUBLIC LIBRARY SCIENCE, Vol. 2, No. 4, p. 578-586, 2006/04
  • A framework for biological analysis on the grid, Toshiyuki Okumura,Susumu Date,Yoichi Takenaka,Hideo Matsuda, GRID COMPUTING IN LIFE SCIENCES, WORLD SCIENTIFIC PUBL CO PTE LTD, p. 79-+, 2006
  • Do grid technologies help life sciences? Lessons learnt from biogrid project in Japan, Susumu Date,Kazutoshi Fujikawa,Hideo Matsuda,Haruki Nakamura,Shinji Shimojo, GRID COMPUTING IN LIFE SCIENCES, WORLD SCIENTIFIC PUBL CO PTE LTD, p. 65-+, 2006
  • The transcriptional landscape of the mammalian genome, P Carninci,T Kasukawa,S Katayama,J Gough,MC Frith,N Maeda,R Oyama,T Ravasi,B Lenhard,C Wells,R Kodzius,K Shimokawa,VB Bajic,SE Brenner,S Batalov,ARR Forrest,M Zavolan,MJ Davis,LG Wilming,Aidinis, V,JE Allen,Ambesi-Impiombato, X,R Apweiler,RN Aturaliya,TL Bailey,M Bansal,L Baxter,KW Beisel,T Bersano,H Bono,AM Chalk,KP Chiu,Choudhary, V,A Christoffels,DR Clutterbuck,ML Crowe,E Dalla,BP Dalrymple,B de Bono,G Della Gatta,D di Bernardo,T Down,P Engstrom,M Fagiolini,G Faulkner,CF Fletcher,T Fukushima,M Furuno,S Futaki,M Gariboldi,P Georgii-Hemming,TR Gingeras,T Gojobori,RE Green,S Gustincich,M Harbers,Y Hayashi,TK Hensch,N Hirokawa,D Hill,L Huminiecki,M Iacono,K Ikeo,A Iwama,T Ishikawa,M Jakt,A Kanapin,M Katoh,Y Kawasawa,J Kelso,H Kitamura,H Kitano,G Kollias,SPT Krishnan,A Kruger,SK Kummerfeld,Kurochkin, IV,LF Lareau,D Lazarevic,L Lipovich,J Liu,S Liuni,S McWilliam,MM Babu,M Madera,L Marchionni,H Matsuda,S Matsuzawa,H Miki,F Mignone,S Miyake,K Morris,S Mottagui-Tabar,N Mulder,N Nakano,H Nakauchi,P Ng,R Nilsson,S Nishiguchi,S Nishikawa,F Nori,O Ohara,Y Okazaki,Orlando, V,KC Pang,WJ Pavan,G Pavesi,G Pesole,N Petrovsky,S Piazza,J Reed,JF Reid,BZ Ring,M Ringwald,B Rost,Y Ruan,SL Salzberg,A Sandelin,C Schneider,C Schonbach,K Sekiguchi,CAM Semple,S Seno,L Sessa,Y Sheng,Y Shibata,H Shimada,K Shimada,D Silva,B Sinclair,S Sperling,E Stupka,K Sugiura,R Sultana,Y Takenaka,K Taki,K Tammoja,SL Tan,S Tang,MS Taylor,J Tegner,SA Teichmann,HR Ueda,E van Nimwegen,R Verardo,CL Wei,K Yagi,H Yamanishi,E Zabarovsky,S Zhu,A Zimmer,W Hide,C Bult,SM Grimmond,RD Teasdale,ET Liu,Brusic, V,J Quackenbush,C Wahlestedt,JS Mattick,DA Hume,C Kai,D Sasaki,Y Tomaru,S Fukuda,M Kanamori-Katayama,M Suzuki,J Aoki,T Arakawa,J Iida,K Imamura,M Itoh,T Kato,H Kawaji,N Kawagashira,T Kawashima,M Kojima,S Kondo,H Konno,K Nakano,N Ninomiya,T Nishio,M Okada,C Plessy,K Shibata,T Shiraki,S Suzuki,M Tagami,K Waki,A Watahiki,Y Okamura-Oho,H Suzuki,J Kawai,Y Hayashizaki, SCIENCE, AMER ASSOC ADVANCEMENT SCIENCE, Vol. 309, No. 5740, p. 1559-1563, 2005/09
  • An Empirical Study of Grid Applications in Life Science - Lesson learnt from Biogrid Project in Japan -, Susumu Date,Kazutoshi Fujikawa,Hideo Matsuda,Haruki Nakamura,Shinji Shimojo, International Journal of Information Technology, Vol. 11, No. 3, p. 16-28, 2005/08
  • A grid environment for data integration of scientific databases, Hideo Matsuda, Proceedings - First International Conference on e-Science and Grid Computing, e-Science 2005, Vol. 2005, p. 3-4, 2005
  • Heterogeneous database federation using grid technology for drug discovery process, Y Tohsato,T Kosaka,S Date,S Shimojo,H Matsuda, GRID COMPUTING IN LIFE SCIENCE, SPRINGER-VERLAG BERLIN, Vol. 3370, p. 43-52, 2005
  • A grid-based information integration system for drug discovery, Gen Kawamura,Masato Kitajima,Kentaro Wakatsuki,Takehiro Furudate,Takahiro Kosaka,Kazuto Yamazaki,Reiji Teramoto,Susumu Date,Shinji Shimojo,Hideo Matsuda, Proceedings - International Workshop on Biomedical Data Engineering, BMDE2005, Vol. 2005, 2005
  • Biased biological functions of horizontally transfered genes in prokaryotic genomes (vol 36, pg 760, 2004), Y Nakamura,T Itoh,H Matsuda,T Gojobori, NATURE GENETICS, NATURE PUBLISHING GROUP, Vol. 36, No. 10, p. 1126-1126, 2004/10
  • Inference method of gene regulatory networks using gene functional classification, Kohei Taki,Reiji Teramoto,Yoichi Takenaka,Hideo Matsuda, Information Technology Letters, 2004/09
  • Biased biological functions of horizontally transferred genes in prokaryotic genomes, Y Nakamura,T Itoh,H Matsuda,T Gojobori, NATURE GENETICS, NATURE PUBLISHING GROUP, Vol. 36, No. 7, p. 760-766, 2004/07
  • Interaction Seach Between Proteins and Ligands by Database Integration with Grid Technology, 2nd International Conference "Genomics, Proteomics and Bioinformatics for Medicine, Masato Kitajima,Yukako Tohsato,Takahiro Kosaka,Kazuto Yamazaki,Reiji Teramoto,Susumu Date,Shinji Shimojo,Hideo Matsuda, 2nd International Conference on Genomics, Proteomics and Bioinformatics for Medicine, 2004/07
  • Heterogeneous Database Federation using Grid Technology for Drug Discovery Process, Yukako Tohsato,Takahiro Kosaka,Susumu Date,Shinji Shimojo,Hideo Matsuda, Proceedings of First International Workshop on Life Science Grid (LSGRID2004), 2004/05
  • Inference of gene regulatory network based on module network model with gene functional classifications, K Taki,R Teramoto,Y Takenaka,H Matsuda, 2004 IEEE COMPUTATIONAL SYSTEMS BIOINFORMATICS CONFERENCE, PROCEEDINGS, IEEE COMPUTER SOC, p. 632-633, 2004
  • MaXML: Mouse annotation XML, Takeya Kasukawa,Hidemasa Bono,Yoshihide Hayashizaki,Yasushi Okazaki,Hideo Matsuda, In Silico Biology, 1, Vol. 4, No. 1, p. 7-15, 2004
  • Integrative annotation of 21,037 human genes validated by full-length cDNA clones, Tadashi Imanishi,Takeshi Itoh,Yutaka Suzuki,Claire O'Donovan,Satoshi Fukuchi,Kanako O. Koyanagi,Roberto A. Barrero,Takuro Tamura,Yumi Yamaguchi-Kabata,Motohiko Tanino,Kei Yura,Satoru Miyazaki,Kazuho Ikeo,Keiichi Homma,Arek Kasprzyk,Tetsuo Nishikawa,Mika Hirakawa,Jean Thierry-Mieg,Danielle Thierry-Mieg,Jennifer Ashurst,Libin Jia,Mitsuteru Nakao,Michael A. Thomas,Nicola Mulder,Youla Karavidopoulou,Lihua Jin,Sangsoo Kim,Tomohiro Yasuda,Boris Lenhard,Eric Eveno,Yoshiyuki Suzuki,Chisato Yamasaki,Jun-Ichi Takeda,Craig Gough,Phillip Hilton,Yasuyuki Fujii,Hiroaki Sakai,Susumu Tanaka,Clara Amid,Matthew Bellgard,Maria de Fatima Bonaldo,Hidemasa Bono,Susan K. Bromberg,Anthony J. Brookes,Elspeth Bruford,Piero Carninci,Claude Chelala,Christine Couillault,Sandro J. de Souza,Marie-Anne Debily,Marie-Dominique Devignes,Inna Dubchak,Toshinori Endo,Anne Estreicher,Eduardo Eyras,Kaoru Fukami-Kobayashi,Gopal R. Gopinath,Esther Graudens,Yoonsoo Hahn,Michael Han,Ze-Guang Han,Kousuke Hanada,Hideki Hanaoka,Erimi Harada,Katsuyuki Hashimoto,Ursula Hinz,Momoki Hirai,Teruyoshi Hishiki,Ian Hopkinson,Sandrine Imbeaud,Hidetoshi Inoko,Alexander Kanapin,Yayoi Kaneko,Takeya Kasukawa,Janet Kelso,Paul Kersey,Reiko Kikuno,Kouichi Kimura,Bernhard Korn,Vladimir Kuryshev,Izabela Makalowska,Takashi Makino,Shuhei Mano,Regine Mariage-Samson,Jun Mashima,Hideo Matsuda,Hans-Werner Mewes,Shinsei Minoshima,Keiichi Nagai,Hideki Nagasaki,Naoki Nagata,Rajni Nigam,Osamu Ogasawara,Osamu Ohara,Masafumi Ohtsubo,Norihiro Okada,Toshihisa Okido,Satoshi Oota,Motonori Ota,Toshio Ota,Tetsuji Otsuki,Dominique Piatier-Tonneau,Annemarie Poustka,Shuang-Xi Ren,Naruya Saitou,Katsunaga Sakai,Shigetaka Sakamoto,Ryuichi Sakate,Ingo Schupp,Florence Servant,Stephen Sherry,Rie Shiba,Nobuyoshi Shimizu,Mary Shimoyama,Andrew J. Simpson,Bento Soares,Charles Steward,Makiko Suwa,Mami Suzuki,Aiko Takahashi,Gen Tamiya,Hiroshi Tanaka,Todd Taylor,Joseph D. Terwilliger,Per Unneberg,Vamsi Veeramachaneni,Shinya Watanabe,Laurens Wilming,Norikazu Yasuda,Sook Hyang-Yoo,Marvin Stodolsky,Wojciech Makalowski,Mitiko Go,Kenta Nakai,Toshihisa Takagi,Minoru Kanehisa,Yoshiyuki Sakaki,John Quackenbush,Yasushi Okazaki,Yoshihide Hayashizaki,Winston Hide,Ranajit Chakraborty,Ken Nishikawa,Hideaki Sugawara,Yoshio Tateno,Zhu Chen,Michio Oishi,Peter Tonellato,Rolf Apweiler,Kousaku Okubo,Lukas Wagner,Stefan Wiemann,Robert L. Strausberg,Takao Isogai,Charles Auffray,Nobuo Nomura,Takashi Gojobori,Sumio Sugano, PLoS Biology, 6, Vol. 2, No. 6, 2004
  • FREP: a database of functional repeats in mouse cDNAs, T Nagashima,H Matsuda,DG Silva,N Petrovsky,A Konagaya,C Schonbach, NUCLEIC ACIDS RESEARCH, OXFORD UNIV PRESS, Vol. 32, p. D471-D475, 2004/01
  • Architecture of a grid-enabled research platform with location-transparency for bioinformatics., Kido Y,Date S,Takeda S,Hatano S,Ma J,Shimojo S,Matsuda H, Genome informatics. International Conference on Genome Informatics, 2, Vol. 15, No. 2, p. 3-12, 2004
  • A method for clustering gene expression data based on graph structure., Seno S,Teramoto R,Takenaka Y,Matsuda H, Genome informatics. International Conference on Genome Informatics, 2, Vol. 15, No. 2, p. 151-160, 2004
  • A challenge towards next-generation research infrastructure for advanced life science, H Nakamura,S Date,H Matsuda,S Shimojo, NEW GENERATION COMPUTING, SPRINGER-VERLAG, Vol. 22, No. 2, p. 157-166, 2004
  • Graph-based clustering for finding distant relationships in a large set of protein sequences, H Kawaji,Y Takenaka,H Matsuda, BIOINFORMATICS, OXFORD UNIV PRESS, Vol. 20, No. 2, p. 243-252, 2004/01
  • Development of a database system for drug discovery by employing grid technology, M Kitajima,Y Tohsato,T Kosaka,K Yamazaki,R Teramoto,S Date,S Shimojo,H Matsuda, SEVENTH INTERNATIONAL CONFERENCE ON HIGH PERFORMANCE COMPUTING AND GRID IN ASIA PACIFIC REGION, PROCEEDINGS, IEEE COMPUTER SOC, p. 365-369, 2004
  • Analysis of gene expression profiles based on clustering, Y Takenaka,H Matsuda, GENOME RESEARCH, COLD SPRING HARBOR LAB PRESS, PUBLICATIONS DEPT, Vol. 13, No. 6B, p. 1558-1558, 2003/06
  • Mouse proteome analysis, A Kanapin,S Batalov,MJ Davis,J Gough,S Grimmond,H Kawaji,M Magrane,H Matsuda,C Schonbach,RD Teasdale,Z Yuan, GENOME RESEARCH, COLD SPRING HARBOR LAB PRESS, PUBLICATIONS DEPT, Vol. 13, No. 6B, p. 1335-1344, 2003/06
  • Development and evaluation of an automated annotation pipeline and cDNA annotation system, T Kasukawa,M Furuno,Nikaido, I,H Bono,DA Hume,C Bult,DP Hill,R Baldarelli,J Gough,A Kanapin,H Matsuda,LM Schriml,Y Hayashizaki,Y Okazaki,J Quackenbush, GENOME RESEARCH, COLD SPRING HARBOR LAB PRESS, PUBLICATIONS DEPT, Vol. 13, No. 6B, p. 1542-1551, 2003/06
  • Mouse Proteome Analysis, Alexander Kanapin,Serge Batalov,Melissa J. Davis,Julian Gough,Sean Grimmond,Hideya Kawaji,Michele Magrane,Hideo Matsuda,Christian Schoenbach,Rohan D. Teasdale,RIKEN GER Group,GSL Members,Zheng Yuan, Genome Research, 13, 6B, 1335-1344, 2003/06
  • BioGrid project in Kansai: towards a Grid technology for advanced life science, Shinji Shimojo,Susumu Date,Toyokazu Akiyama,Toshiyuki Okumura,Hideo Matsuda,Haruki Nakamura, Grid Computing and e-Science, 2003/06
  • A clustering method for comparative analysis between genomes and pathways, S Miyake,Y Tohsato,Y Takenaka,H Matsuda, EIGHTH INTERNATIONAL CONFERENCE ON DATABASE SYSTEMS FOR ADVANCED APPLICATIONS, PROCEEDINGS, IEEE COMPUTER SOC, p. 327-334, 2003
  • Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs, Y Okazaki,M Furuno,T Kasukawa,J Adachi,H Bono,S Kondo,Nikaido, I,N Osato,R Saito,H Suzuki,Yamanaka, I,H Kiyosawa,K Yagi,Y Tomaru,Y Hasegawa,A Nogami,C Schonbach,T Gojobori,R Baldarelli,DP Hill,C Bult,DA Hume,J Quackenbush,LM Schriml,A Kanapin,H Matsuda,S Batalov,KW Beisel,JA Blake,D Bradt,Brusic, V,C Chothia,LE Corbani,S Cousins,E Dalla,TA Dragani,CF Fletcher,A Forrest,KS Frazer,T Gaasterland,M Gariboldi,C Gissi,A Godzik,J Gough,S Grimmond,S Gustincich,N Hirokawa,IJ Jackson,ED Jarvis,A Kanai,H Kawaji,Y Kawasawa,RM Kedzierski,BL King,A Konagaya,Kurochkin, IV,Y Lee,B Lenhard,PA Lyons,DR Maglott,L Maltais,L Marchionni,L McKenzie,H Miki,T Nagashima,K Numata,T Okido,WJ Pavan,G Pertea,G Pesole,N Petrovsky,R Pillai,JU Pontius,D Qi,S Ramachandran,T Ravasi,JC Reed,DJ Reed,J Reid,BZ Ring,M Ringwald,A Sandelin,C Schneider,CAM Semple,M Setou,K Shimada,R Sultana,Y Takenaka,MS Taylor,RD Teasdale,M Tomita,R Verardo,L Wagner,C Wahlestedt,Y Wang,Y Watanabe,C Wells,LG Wilming,A Wynshaw-Boris,M Yanagisawa,Yang, I,L Yang,Z Yuan,M Zavolan,Y Zhu,A Zimmer,P Carninci,N Hayatsu,T Hirozane-Kishikawa,H Konno,M Nakamura,N Sakazume,K Sato,T Shiraki,K Waki,J Kawai,K Aizawa,T Arakawa,S Fukuda,A Hara,W Hashizume,K Imotani,Y Ishii,M Itoh,Kagawa, I,A Miyazaki,K Sakai,D Sasaki,K Shibata,A Shinagawa,A Yasunishi,M Yoshino,R Waterston,ES Lander,J Rogers,E Birney,Y Hayashizaki, NATURE, NATURE PUBLISHING GROUP, Vol. 420, No. 6915, p. 563-573, 2002/12
  • Using data compression for multidimensional distribution analysis, K Onizuka,T Noguchi,Y Akiyama,H Matsuda, IEEE INTELLIGENT SYSTEMS, IEEE COMPUTER SOC, Vol. 17, No. 3, p. 48-54, 2002/05
  • Exploration of novel motifs derived from mouse cDNA sequences, H Kawaji,C Schonbach,Y Matsuo,J Kawai,Y Okazaki,Y Hayashizaki,H Matsuda, GENOME RESEARCH, COLD SPRING HARBOR LAB PRESS, Vol. 12, No. 3, p. 367-378, 2002/03
  • An application of a pathway alignment method to comparative analysis between genome and pathways, S. Miyake,Y. Tahsato,H. Matsuda, Proceedings - IEEE Computer Society Bioinformatics Conference, CSB 2002, Institute of Electrical and Electronics Engineers Inc., 2002
  • P-quasi complete linkage analysis for gene-expression data, S. Seno,R. Teramoto,H. Matsuda, Proceedings - IEEE Computer Society Bioinformatics Conference, CSB 2002, Institute of Electrical and Electronics Engineers Inc., 2002
  • Using Data Compression for Multidimensional Distribution Analysis, Yutaka Akiyama,Tamotsu Noguchi,Kentaro Onizuka,Hideo Matsuda, IEEE Intelligent Systems, Vol. 17, No. 3, p. 48-54, 2002
  • An Application of a Pathway Alignment Method to the Analysis of Metabolic Pathways, Yukako Tohsato,Hideo Matsuda,Akihiro Hashimoto, Research Communications in Biochemistry, Cell and Molecular Biology, 15, 3/4, 179-191, 2001/12
  • Prediction of Protein Secondary Structure Using the Threading Algorithm and Local Sequence Similarity, Tamotsu Noguchi,Masahiro Ito,Hideo Matsuda,Yutaka Akiyama,Ken Nishikawa, 2001/10
  • Peptide Conformation Prediction by High-Speed Parallel Tree Search on a Massively Parallel Computer, Makoto Ando,Yutaka Akiyama,Hideo Matsuda, 2001/10
  • Functional annotation of a full-length mouse cDNA collection, J Kawai,A Shinagawa,K Shibata,M Yoshino,M Itoh,Y Ishii,T Arakawa,A Hara,Y Fukunishi,H Konno,J Adachi,S Fukuda,K Aizawa,M Izawa,K Nishi,H Kiyosawa,S Kondo,Yamanaka, I,T Saito,Y Okazaki,T Gojobori,H Bono,T Kasukawa,R Saito,K Kadota,H Matsuda,M Ashburner,S Batalov,T Casavant,W Fleischmann,T Gaasterland,C Gissi,B King,H Kochiwa,P Kuehl,S Lewis,Y Matsuo,Nikaido, I,G Pesole,J Quackenbush,LM Schriml,F Staubli,R Suzuki,M Tomita,L Wagner,T Washio,K Sakai,T Okido,M Furuno,H Aono,R Baldarelli,G Barsh,J Blake,D Boffelli,N Bojunga,P Carninci,MF de Bonaldo,MJ Brownstein,C Bult,C Fletcher,M Fujita,M Gariboldi,S Gustincich,D Hill,M Hofmann,DA Hume,M Kamiya,NH Lee,P Lyons,L Marchionni,J Mashima,J Mazzarelli,P Mombaerts,P Nordone,B Ring,M Ringwald,Rodriguez, I,N Sakamoto,H Sasaki,K Sato,C Schonbach,T Seya,Y Shibata,KF Storch,H Suzuki,K Toyo-oka,KH Wang,C Weitz,C Whittaker,L Wilming,A Wynshaw-Boris,K Yoshida,Y Hasegawa,H Kawaji,S Kohtsuki,Y Hayashizaki, NATURE, MACMILLAN PUBLISHERS LTD, Vol. 409, No. 6821, p. 685-690, 2001/02
  • PDB-REPRDB: a database of representative protein chains from the Protein Data Bank (PDB), T Noguchi,H Matsuda,Y Akiyama, NUCLEIC ACIDS RESEARCH, OXFORD UNIV PRESS, Vol. 29, No. 1, p. 219-220, 2001/01
  • A graph-based clustering method for a large set of sequences using a graph partitioning algorithm., Kawaji H,Yamaguchi Y,Matsuda H,Hashimoto A,Genome informatics. International Conference on Genome Informatics, Vol. 12, p. 93-102, 2001
  • An Information Content Maximization Alignment Algorithm for Metabolic Pathway Analysis, Yukako Tosato,Hideo Matsuda,Akihiro Hashimoto, Vol. 41, No. 7, p. 41-48, 2000/11
  • Automatic detection of conserved gene clusters in multiple genomes by graph comparison and P-quasi grouping, Wataru Fujibuchi,Hiroyuki Ogata,Hideo Matsuda,Minoru Kanehisa, Nucleic Acids Research, Vol. 28, No. 20, p. 4029-4036, 2000/10/15
  • A Multiple Alignment Algorithm for Metabolic Pathway Analysis using Enzyme Hierarchy, Yukako Tohsato,Hideo Matsuda,Akihiro Hashimoto, 2000/08
  • Quick selection of representative protein chain sets based on customizable requirements, T Noguchi,K Onizuka,M Ando,H Matsuda,Y Akiyama, BIOINFORMATICS, OXFORD UNIV PRESS, Vol. 16, No. 6, p. 520-526, 2000/06
  • Determination of the complete nucleotide sequence and haplotypes in the D-loop region of the mitochondrial genome in the Oriental white stork, Ciconia boyciana, Yoshihiro Yamamoto,Koichi Murata,Hideo Matsuda,Takahisa Hosoda,Kazuo Tamura,Jun-Ichi Furuyama, Genes and Genetic Systems, Vol. 75, No. 1, p. 25-32, 2000/02
  • Hierarchical Approach to Parallel Tree Search for Protein Conformational Analysis., Makoto Ando,Yutaka Akiyama,Hideo Matsuda, 2000
  • ESCAPE 2.0: Parallel exhaustive conformational search system of peptides with conformational libraries as building blocks, M. Ando,Y. Akiyama,H. Matsuda, Proceedings - 4th International Conference/Exhibition on High Performance Computing in the Asia-Pacific Region, HPC-Asia 2000, Institute of Electrical and Electronics Engineers Inc., Vol. 2, p. 1097-1102, 2000
  • An efficient procedure for maintaining materialized views on distributed database systems., Takeya Kasukawa,Michio Nakanishi,Hideo Matsuda,Akihiro Hashimoto, Systems and Computers in Japan, Vol. 31, No. 5, p. 86-96, 2000
  • GXML: A Novel Method for Exchanging and Querying Complete Genomes by Representing them as Structured Documents, AARONJ.STOKES,HIDEO MATSUDA,AKIHIRO HASHIMOTO, IPSJ Trans. on Database, Vol. 40, No. 6, p. 66-78, 1999/08/15
  • Implementing a Molecular Phylojenetic Tree Database with Retrieval Function For Similar Structure, YOSHIKAWA TAKANOBU,TABE TOMOHIRO,KISHINAMI RISA,MATSUDA HIDEO,HASHIMOTO AKIHIRO, Vol. 40, No. 6, p. 54-65, 1999/08/15
  • Phylogenetic analysis of the third Hsp70 homolog in Escherichia coli; a novel member of the Hsc66 subfamily and its possible Co-chaperone, Takeshi Itoh,Hideo Matsuda,Hirotada Mori, DNA Research, Universal Academy Press Inc., Vol. 6, No. 5, p. 299-305, 1999
  • Querying molecular biology databases by integration using multiagents, H Matsuda,T Imai,M Nakanishi,A Hashimoto, IEICE TRANSACTIONS ON INFORMATION AND SYSTEMS, IEICE-INST ELECTRONICS INFORMATION COMMUNICATIONS ENG, Vol. E82D, No. 1, p. 199-207, 1999/01
  • Classifying molecular sequences using a linkage graph with their pairwise similarities, H Matsuda,T Ishihara,A Hashimoto, THEORETICAL COMPUTER SCIENCE, ELSEVIER SCIENCE BV, Vol. 210, No. 2, p. 305-325, 1999/01
  • 分散データベースシステムにおける効率的な実体化ビュー更新手続き, 粕川雄也,中西通雄,松田秀雄,橋本昭洋, 電子情報通信学会論文誌. D-I, 情報・システム, I-コンピュータ, Vol. 81, No. 8, p. 1003-1013, 1998/08
  • Implementation of a parallel Prolog system on a distributed memory parallel computer, H Matsuda,T Kawabata,Y Kaneda, IEICE TRANSACTIONS ON INFORMATION AND SYSTEMS, IEICE-INST ELECTRONICS INFORMATION COMMUNICATIONS ENG, Vol. E80D, No. 4, p. 504-509, 1997/04
  • Implementing an integrated system for heterogeneous molecular biology databases with intelligent agents, T Imai,H Matsuda,T Sekihara,M Nakanishi,A Hashimoto, 1997 IEEE PACIFIC RIM CONFERENCE ON COMMUNICATIONS, COMPUTERS AND SIGNAL PROCESSING, VOLS 1 AND 2, I E E E, p. 807-810, 1997
  • 分散共有メモリ型超並列計算機JUMP-1におけるスケーラブルI/Oサブシステムの構成, 中條拓伯,中野智行,松本尚,小畑正貴,松田秀雄,平木敬,金田悠紀夫, 情報処理学会論文誌, Vol. 37, No. 7, p. 1429-1439, 1996/07/15
  • 遺伝的アルゴリズムによる分子系統樹の作成, 川本芳久,松田秀雄,橋本昭洋, 情報処理学会論文誌, Vol. 37, No. 6, p. 1107-1116, 1996/06/15
  • High Performance I/O System of the Distributed Shared-Memory Massively Parallel Computer JUMP-1., Hironori Nakajo,Takashi Matsumoto,Masaki Kohata,Hideo Matsuda,Kei Hiraki,Yukio Kaneda, Proceedings of the Seventh IASTED/ISMM International Conference on Parallel and Distributed Computing and Systems, Washington, D.C., USA, October 19-21, 1995, IASTED/ACTA Press, p. 470-473, 1995
  • Overview of the JUMP-1, an MPP Prototype for General-Purpose Parallel Computations, Kei Hiraki,Hideharu Amano,Morihiro Kuga,Toshinori Sueyoshi,Tomohiro Kudoh,Hiroshi Nakashima,Hironori Nakajo,Hideo Matsuda,Takashi Matsumoto,Shin-ichiro Mori, Proc. Intl. Symp. Parallel Architectures, Algorithms and Networks, p. 427-434, 1994/12
  • Fast phylogenetic analysis on a massively parallel machine, Hideo Matsuda,Gary J. Olsen,Ross Overbeek,Yukio Kaneda, Proceedings of the International Conference on Supercomputing, Association for Computing Machinery, Vol. 129421, p. 297-302, 1994/07/16
  • An application of an OR-Parallel Prolog system to phylogenetic analysis, Hideo Matsuda,Yukio Kaneda, LISP and Symbolic Computation, Kluwer Academic Publishers, Vol. 7, No. 2-3, p. 211-229, 1994/06
  • FASTDNAML - A TOOL FOR CONSTRUCTION OF PHYLOGENETIC TREES OF DNA-SEQUENCES USING MAXIMUM-LIKELIHOOD, GJ OLSEN,H MATSUDA,R HAGSTROM,R OVERBEEK, COMPUTER APPLICATIONS IN THE BIOSCIENCES, OXFORD UNIV PRESS, Vol. 10, No. 1, p. 41-48, 1994/02
  • An Application of an OR-Parallel Prolog System with a Priority Control Mechanism to Molecular Phylogenetic Tree Construction, MATSUDA Hideo, 1994
  • A Priority Control System for OR-Parallel Prolog and Its Performance Evaluation“jointly authored", MATSUDA Hideo, 1993
  • Efficient Query Processing on Genomic Database using Data-Parallel Logic Programming Language“jointly authored", MATSUDA Hideo, 1993
  • IMPLEMENTATION OF A PARALLEL-PROCESSING SYSTEM FOR INFERENCE OF PHYLOGENETIC TREES, H MATSUDA,GJ OLSEN,R HAGSTROM,R OVERBEEK,Y KANEDA, IEEE PACIFIC RIM CONFERENCE ON COMMUNICATIONS, COMPUTERS AND SIGNAL PROCESSING : PROCEEDINGS, VOLS 1 AND 2, I E E E, p. 280-283, 1993
  • A Priority Control System for OR-Parallel Prolog and Its Application, MATSUDA Hideo, 1993
  • Introduction of dosim predicate to Prolog, Yukio Kaneda,Hideo Matsuda,Katsuki Akiyoshi, New Generation Computing, Vol. 8, No. 2, p. 163-181, 1990/08
  • INTRODUCTION OF DOSIM PREDICATE TO PROLOG, Y KANEDA,H MATSUDA, NEW GENERATION COMPUTING, SPRINGER VERLAG, Vol. 8, No. 2, p. 163-181, 1990
  • A Study on Distributed Simulation for Flexible Manufacturing Systems“jointly authored", MATSUDA Hideo, 1989
  • 密結合マルチプロセッサ上でのFGHC処理系の実現(共著), 松田秀雄, 30/10, 情報処理学会論文誌, 1989
  • Implementing Parallel Prolog System on Multiprocessor System PARK, MATSUDA Hideo, 1988
  • A Study on Collision-Free Path Planning for a Robot Manipulator“jointly authored", MATSUDA Hideo, 1988
  • Implementing Parallel Prolog System on Multiprocessor System PARK“jointly authored", MATSUDA Hideo, 1987
  • Sequential Prolog machine PEK, Yukio Kaneda,Naoyuki Tamura,Koichi Wada,Hideo Matsuda,Shumin Kuo,Sadao Maekawa, New Generation Computing, Vol. 4, No. 1, p. 51-66, 1986/03
  • Sequential Prolog Machine PEK“jointly authored", MATSUDA Hideo, 1986
  • PARALLEL PROLOG MACHINE PARK - ITS HARDWARE STRUCTURE AND PROLOG SYSTEM, H MATSUDA,M KOHATA,T MASUO,Y KANEDA,S MAEKAWA, LECTURE NOTES IN COMPUTER SCIENCE, SPRINGER VERLAG, Vol. 221, p. 35-43, 1986
  • Implementing Parallel Prolog System"k - Prolog", MATSUDA HIDEO,TAMURA NAOYUKI,KOHATA MASAKI,KANEDA YUKIO,MAEKAWA SADAO, IPSJ Journal, Information Processing Society of Japan (IPSJ), Vol. 26, No. 2, p. 296-303, 1985/03/15

Misc.

  • Cell trajectory inference for mouse stem cell differentiation using cell type information from single-cell RNA-seq data, Yutaka Izeki,Mona Mizutome,Junko Yoshida,Shigeto Seno,Kyoji Horie,Hideo Matsuda, 29th Conference on Intelligent Systems for Molecular Biology and 20th European Conference on Computational Biology (ISMB/ECCB 2021), 2021/07
  • 炎症の進行過程解明のための一細胞トランスクリプトーム解析, 松田秀雄, 医学のあゆみ, Vol. 275, No. 10, p. 1085-1091, 2020/12
  • Cell trajectory inference for revealing differentiation process of mouse stem cells using single cell RNA-seq data, Takumi Adachi,Junko Yoshida,Shigeto Seno,Kyoji Horie,Hideo Matsuda, 28th Conference on Intelligent Systems for Molecular Biology (ISMB), 2020/07
  • A method for tracking cell migration in vivo based on deep learning with target detection, Tsubasa Mizugaki,Utkrisht Rajkumar,Kenji Fujimoto,Hironori Shigeta,Shigeto Seno,Yutaka Uchida,Masaru Ishii,Vineet Bafna,Hideo Matsuda, 28th Conference on Intelligent Systems for Molecular Biology (ISMB), 2020/07
  • 脂肪細胞におけるSTAT3を介したUCP1発現制御機構の解明, 疋田菜光,岩瀬麻里,川原崎聡子,酒井章子,坂本智弥,大里直樹,瀬尾茂人,野村亘,野村亘,高橋春弥,松田秀雄,井上和生,井上和生,河田照雄,河田照雄,後藤剛,後藤剛, 日本栄養・食糧学会近畿支部大会および公開シンポジウム講演抄録集, Vol. 59th, 2020
  • 脂肪組織におけるglycerol kinaseのUcp1発現制御機構, 岩瀬 麻里,常盤 颯志,瀬尾 茂人,向井 貴子,高橋 春弥,野村 亘,Jheng Huei-Fen,楠堂 達也,大里 直樹,松田 秀雄,井上 和生,河田 照雄,後藤 剛, 肥満研究, (一社)日本肥満学会, Vol. 25, No. Suppl., p. 280-280, 2019/10
  • 白色脂肪組織の褐色化に対するglycerol kinaseの役割, 岩瀬麻里,常盤颯志,瀬尾茂人,向井貴子,高橋春弥,野村亘,野村亘,JHENG Huei‐Fen,荒武,楠堂達也,大里直樹,松田秀雄,河田照雄,河田照雄,後藤剛,後藤剛, 日本栄養・食糧学会大会講演要旨集, Vol. 73rd, 2019/04/22
  • IL‐1βが白色脂肪組織におけるUCP1発現誘導に及ぼす影響の検討, 新谷真和,吉竹里依子,岩瀬麻里,高橋春弥,野村亘,JHENG Huie‐Fun,荒武,大里直樹,瀬尾茂人,松田秀雄,河田照雄,河田照雄,後藤剛,後藤剛, 肥満研究, Vol. 24, No. Supplement, 2018/09/25
  • FGF21はPPARαアゴニスト摂取時の代謝異常改善に重要である, 岩瀬麻里,平田茉莉子,高橋春弥,JHENG Huei‐Fen,野村亘,荒武,高橋信之,高橋信之,瀬尾茂人,松田秀雄,阿部恵,海老原健,伊藤信行,河田照雄,河田照雄,後藤剛,後藤剛, 日本栄養・食糧学会大会講演要旨集, Vol. 72nd, 2018/04/27
  • DPP‐4阻害剤テネリグリプチンが脂肪組織のUCP‐1発現に与える影響, 澤崎穂菜美,武田健一郎,高橋春弥,野村亘,野村亘,JHENG Huei‐fen,荒武,高橋信之,高橋信之,大里直樹,瀬尾茂人,松田秀雄,河田照雄,後藤剛, 日本農芸化学会大会講演要旨集(Web), Vol. 2018, 2018/03/05
  • Ucp1発現を制御するnon‐coding RNAの探索と機能解析, 岩瀬麻里,酒井章子,瀬尾茂人,TONY Kuo,高橋春弥,野村亘,野村亘,JHENG Huie‐Fun,荒武,PAUL Horton,大里直樹,松田秀雄,河田照雄,河田照雄,後藤剛,後藤剛, 日本農芸化学会大会講演要旨集(Web), Vol. 2018, 2018/03/05
  • 褐色脂肪細胞機能におけるglycerol kinaseの役割, 岩瀬麻里,常盤颯志,高橋春弥,野村亘,野村亘,JHENG Huei-Fun,荒武,大里直樹,瀬尾茂人,松田秀雄,河田照雄,河田照雄,後藤剛,後藤剛, 日本食品科学工学会関西支部大会市民フォーラム講演要旨集, Vol. 1st, 2018
  • 発現制御に関するmiRNAの探索及び機能解析, 酒井章子,大久保麻里,高橋春弥,野村亘,野村亘,JHENG Huie‐Fen,荒武,瀬尾茂人,大里直樹,松田秀雄,河田照雄,河田照雄,後藤剛,後藤剛, 日本栄養・食糧学会近畿支部大会および公開シンポジウム講演抄録集, Vol. 56th, 2017/11/01
  • 脂肪細胞特異的PPARα高発現マウスの糖代謝異常改善とメタボローム解析, 高橋春弥,眞田康平,永井宏幸,青木ゆめこ,伊藤哲朗,瀬尾茂人,松田秀雄,河田照雄,河田照雄,後藤剛,後藤剛, 肥満研究, Vol. 23, No. Supplement, 2017/09/22
  • Message from the BIBE 2016 Program Chairs, Hideo Matsuda,Ka-Lok Ng,Chi-Ren Shyu, Proceedings - 2016 IEEE 16th International Conference on Bioinformatics and Bioengineering, BIBE 2016, Institute of Electrical and Electronics Engineers Inc., 2016/12/16
  • 脂肪細胞特異的PPARα高発現が食餌誘導性の糖代謝異常に与える影響, 眞田康平,高橋春弥,永井宏幸,瀬尾茂人,松田秀雄,河田照雄,後藤剛,河田照雄,後藤剛, 肥満研究, Vol. 22, No. Supplement, 2016/09/20
  • 模様特徴量とグラフカットを利用した生体骨組織の骨髄腔の領域分割, 繁田 浩功,間下 以大,菊田 順一,瀬尾 茂人,石井 優,松田 秀雄, 第5回生命医薬情報学連合大会, 2016/09
  • ウェーブレット特徴量を用いた生体骨組織の骨髄腔の領域分割手法, 繁田浩功,間下以大,菊田順一,瀬尾茂人,竹村治雄,松田秀雄,石井優, 2016/06
  • コンポーネントツリーを用いたグローバルデータアソシエーションによる細胞追跡手法, Kohei Kurashige,Shigeto Seno,Tomohiro Mashita,Junichi Kikuta,Yoichi Takenaka,Masaru Ishii,Hideo Matsuda, 2015/06
  • 生体骨組織における骨髄腔画像のウェーブレット変換を用いた骨髄腔領域の認識手法, 繁田 浩功,間下 以大,金子 雄,菊田 順一,瀬尾 茂人,竹村 治雄,松田 秀雄,石井 優, 2015/01
  • Improvement approach of cell tracking accuracy by using inter-frame information, Kohei Kurashige,Shigeto Seno,Tomohiro Mashita,Junichi Kikuta,Yoichi Takenaka,Masaru Ishii,Hideo Matsuda, 2014/10
  • An automatic event detection method using semi-supervised learning for time-lapse imaging data, Kojiro Fukuda,Shigeto Seno,Tomohiro Mashita,Yoichi Takenaka,Masaru Ishii,Hideo Matsuda, 2014/10
  • リードの由来階級の既知・未知予測に基づくメタゲノム配列の系統分類手法, 吉田拓真,竹中要一,松田秀雄, 研究報告バイオ情報学(BIO), 一般社団法人情報処理学会, Vol. 2014, No. 4, p. 1-6, 2014/09/12
  • 大域データ対応付けの反復実行による細胞追跡精度の改善手法, 藏重 昂平,福田浩二郎,瀬尾茂人,間下以大,竹中要一,松田秀雄, 情報処理学会研究報告, 2014/09
  • ベイジアンネットワークによる遺伝子制御ネットワーク推定結果の反復構築のための計算速度向上手法 (情報論的学習理論と機械学習), 津田 絢子,瀬尾 茂人,竹中 要一,松田 秀雄, 電子情報通信学会技術研究報告 = IEICE technical report : 信学技報, 一般社団法人電子情報通信学会, Vol. 114, No. 105, p. 47-53, 2014/06/25
  • ベイジアンネットワークによる遺伝子制御ネットワーク推定結果の反復構築のための計算速度向上手法, 津田絢子,瀬尾茂人,竹中要一,松田秀雄, 研究報告バイオ情報学(BIO), 一般社団法人情報処理学会, Vol. 2014, No. 9, p. 1-7, 2014/06/18
  • ベイジアンネットワークによる遺伝子制御ネットワーク推定結果の反復構築のための計算速度向上手法, 津田絢子,瀬尾茂人,竹中要一,松田秀雄, 研究報告数理モデル化と問題解決(MPS), 一般社団法人情報処理学会, Vol. 2014, No. 9, p. 1-7, 2014/06/18
  • タイムラプスイメージングによる細胞周期観測画像の時空間解析, 福田浩二郎,瀬尾茂人,間下以大,竹中要一,松田秀雄, 2014/06
  • マルチチャンネル蛍光顕微鏡動画のためのパーティクルフィルタを用いた細胞追跡手法, 小森康祐,瀬尾茂人,間下以大,竹中要一,松田秀雄, 2014/03
  • A Bone-Marrow Space Segmentation Method using Graph-Cuts, Jun Usami,Hironori Shigeta,Tomohiro Mashita,Yoshihiro Kuroda,Junichi Kikuta,Shigeto Senoo,Masaru Ishii,Hideo Matsuda,Haruo Takemura, IPSJ SIG Notes, Information Processing Society of Japan (IPSJ), Vol. 2014, No. 17, p. 1-6, 2014/02/24
  • 経時観測蛍光画像からのモーションヒストリーイメージを用いた細胞分裂の検出方法, 福田浩二郎,瀬尾茂人,間下以大,前田栄,竹中要一,石井優,松田秀雄, 2013/08
  • Global Data Associationによる経時観察画像における破骨前駆細胞の自動追跡手法, 尾野貴広,瀬尾茂人,間下以大,竹中要一,石井優,松田秀雄, 2013/07
  • Evaluation Method Based on Graph Cut For Barrier Permeation in Bone Tissues, Vol. 2013, No. 3, p. 1-6, 2013/03/14
  • Improvement of the Accuracy of Mapping by Composing Alleles, 奥田華代,竹中要一,大野朋重,瀬尾茂人,松田秀雄, 全国大会講演論文集, 一般社団法人情報処理学会, Vol. 2013, No. 1, p. 269-271, 2013/03/06
  • 混合正規分布モデルを用いた経時観測蛍光画像からの細胞核の検出と追跡手法, 瀬尾茂人,間下以大,前田栄,竹中要一,石井優,松田秀雄, 研究報告数理モデル化と問題解決(MPS), Vol. 2013, No. 5, p. 1-6, 2013/02/20
  • Gene Set Enrichment Analysis for Time-Series Gene Expression Profile, Yuta Yuta Okuma,Seno Shigeto,takenaka yoichi,Matsuda Hideo, BME, Japanese Society for Medical and Biological Engineering, Vol. 51, p. R-166-R-166, 2013
  • 多色蛍光タイムラプスイメージングによる細胞周期観測データのための細胞自動追跡手法, 瀬尾茂人,間下以大,前田栄,竹中要一,石井優,松田秀雄, 2012/11
  • Gene Set Enrichment Analysis for Time-series Gene Expression Profiles, Vol. 2012, No. 26, p. 1-7, 2012/06/21
  • Gene Set Enrichment Analysis for Time-series Gene Expression Profiles, OKUMA YUTA,SENO SHIGETO,TAKENAKA YOICHI,MATSUDA HIDEO, IEICE technical report. Neurocomputing, The Institute of Electronics, Information and Communication Engineers, Vol. 112, No. 108, p. 141-147, 2012/06/21
  • AI-3 Mathematical approaches to biology, Tosato Yukako,Kobayashi Koichi,Matsuda Hideo,Azuma Shun-ichi, Proceedings of the IEICE General Conference, The Institute of Electronics, Information and Communication Engineers, Vol. 2012, p. "SS-95"-"SS-96", 2012/03/06
  • SF-090-4 疾患プロテオミクスによる大腸癌新規関連タンパク質マルチマーカーの開発(SF-090 サージカルフォーラム(90)大腸 基礎-3(遺伝子),第112回日本外科学会定期学術集会), 賀川 義規,竹政 伊知朗,松尾 英一,金子 直樹,瀬尾 茂人,渡辺 真,西村 潤一,水島 恒和,池田 正孝,山本 浩文,関本 貢嗣,松田 秀雄,西村 紀,土岐 祐一郎,森 正樹, 日本外科学会雑誌, 一般社団法人日本外科学会, Vol. 113, No. 2, 2012/03/05
  • A method for using REST service in bioinformatics workflow by converting to SOAP service, Seigo Ikeda,Yoshiyuki kido,Shigeto Senoo,Yoichi Takenaka,Hideo Matsuda, IPSJ SIG Technical Reports (2011-BIO-25), Vol. 2011, No. 9, p. 1-7, 2011/06
  • A Proposal for a Method to Support Bioinformatics Workflow Composition using Metadata, Takanori Fukumoto,Yoshiyuki Kido,Shigeto Seno,Yoichi Takenaka,Hideo Matsuda, Proceedings of Kansai Branch Annual Meeting, Information Processing Society of Japan, Kansai Branch, 2010/09
  • Inference of Gene Regulatory Network for Cell Differentiations, Hideo Matsuda, The Korean Society for Bioinformatics and Systems Biology (KSBSB) Summer School 2010, p. 35-38, 2010/07
  • A Study on Discovery of Web Service and Modeling Data for Multi-scale Simulation, KIDO YOSHIYUKI,FUKUMOTO TAKANORI,NOMURA TAISHIN,KURACHI YOSHIHISA,MATSUDA HIDEO, IPSJ SIG technical reports, 一般社団法人情報処理学会, Vol. 20, No. 13, p. M1-M6, 2010/03/04
  • 立体構造情報と機能情報によるタンパク質間相互作用予測法の改良, 吉川達也,瀬尾茂人,竹中要一,松田秀雄, 情報処理学会研究報告, Vol. 2010, No. 1, p. 1-8, 2010/03
  • A Study on Discovery of Web Service and Modeling Data for Multi-scale Simulation, 木戸善之,福本貴紀,野村泰伸,野村泰伸,倉智嘉久,倉智嘉久,松田秀雄,松田秀雄, 情報処理学会研究報告(CD-ROM), Vol. 2009, No. 6, 2010
  • A proposal of repository federation method for integration of Web service information, Takefumi Nonaka,Junya Seo,Yoshiyuki Kido,Shigeto Seno,Yoichi Takenaka,Hideo Matsuda, IPSJ SIG Technical Reports (2009-BIO-16-1), Vol. 2009, No. 25, p. 1-4, 2009/03
  • DISCOVERY OF RELATION BETWEEN MODELING DATA USING IN-SILICO MODELING ONTOLOGY AND META-ONTOLOGY, Yoshiyuki Kido,Yoshiyuki Asai,Taishin Nomura,Yoshihisa Kurachi,Hideo Matsuda, JOURNAL OF PHYSIOLOGICAL SCIENCES, SPRINGER TOKYO, Vol. 59, No. Supplement 1, p. 308-308, 2009
  • Architecture of an Efficient Data Transfer System and Manager for Genome-wide Analysis Workflows, Junya Seo,Yoshiyuki Kido,Shigeto Seno,Yoichi Takenaka,Hideo Matsuda, The 3rd MEI International Symposium 2008, 2008/12
  • Functional profiling of OMIM data using MeSH vocabulary, Takeru Nakazato,Hidemasa Bono,Hideo Matsuda,Toshihisa Takagi, Proceedings of the 2008 Annual Conference of the Japanese Society for Bioinformatics (JSBi2008), P070/T07, 2008/12
  • Inference of gene regulatory network for adipocyte/osteoblast differentiation, Hideo Matsuda,Yoichi Takenaka,Yosuke Mizuno,Shigeto Seno,Yoshimi Tokuzawa,Yutaka Nakachi,Hidemasa Bono,Yasushi Okazaki, 2008/12
  • ISMO: in-Silico Modeling Ontologyの提案, 木戸善之,浅井義之,野村泰伸,倉智嘉久,松田秀雄, 生体医工学シンポジウム2008講演予稿集(2008/09/19-20,豊中), 2008/09
  • A method for refinement of the calculation range by divided structure key of the compound search using Tanimoto coefficient, Takashi Shimizu,Yoshiyuki Kido,Shigeto Seno,Yoichi Takenaka,Hideo Matsuda, IPSJ SIG Technical Reports (2008-BIO-14), Vol. 2008, No. 86, p. 5-8, 2008/09
  • 化合物‐タンパク質相互作用情報に基づく新規in silico化合物探索手法の開発, 小川哲平,北島正人,箕輪洋介,松田秀雄,藤井信孝,奥野恭史, 日本薬学会年会要旨集, Vol. 128th, No. 2, 2008/03/05
  • A Method for the Efficient Data Transmission in Bioinformatics Workflows, Junya Seo,Shigeto Seno,Yoichi Takenaka,Hideo Matsuda, 2007/09
  • 多様なグリッドミドルウェアに対応する転送サービスの設計, 木戸善之,若月謙太郎,松田秀雄, 情報処理学会シンポジウムシリーズ (SACSIS 2007), 2007/05
  • Nucleotide Encoding according to Perfect Linear Code and its Application to Multiple Alignment, Yoichi Takenaka,Masato Sakata,Hideo Matsuda, 情報処理学会研究報告 バイオ情報学研究会, 2006/06
  • Bio Data Services, Shoko Kawamoto,Hideo Matsuda, IPSJ Magazine, 2006/03
  • Design of Workflow Schema for in-Silico Screening, KIDO YOSHIYUKI,DATE SUSUMU,MAENO TAKASHI,HASEGAWA ICHIRO,SHIMOJO SHINJI,MATSUDA HIDEO, IPSJ SIG technical reports, Information Processing Society of Japan (IPSJ), Vol. 2, p. 17-24, 2005/10/07
  • Designing a rule-based environment to interoperate life-scientific ontologies for drug discover, T Kosaka,S Date,H Matsuda,S Shimojo, 2005 SYMPOSIUM ON APPLICATIONS AND THE INTERNET WORKSHOPS, PROCEEDINGS, IEEE COMPUTER SOC, Vol. 2005, p. 324-327, 2005
  • An OGSA-Based Integration of Life Scientific Resources toward Drug Discovery, Takahiro Kosaka,Yukako Tohsato,Susumu Date,Hideo Matsuda,Shinji Shimojo, 2004/01
  • メタデータを用いたバイオ情報データベース連携検索手法の提案, 上田真由美,高坂貴弘,細川卓哉,遠里由佳子,伊達進,松田秀雄,下條真司, 第2回情報科学技術フォーラム(FIT2003), 2003/09
  • データグリッド技術を用いた異種分子生物学データベースの連携手法, 細川 卓哉,高坂 貴弘,遠里 由佳子,伊達 進,下條 真司,松田 秀雄, 第46回MPS研究会, 情報処理学会, Vol. 2003, No. 91, p. 37-40, 2003/09
  • OGSA-DAI による異種バイオデータベースの連携手法とその評価, 高坂貴弘,細川卓哉,遠里由佳子,伊達進,松田秀雄,下條真司, 電子情報通信学会 CPSY2003-20、pp. 7-12, 2003/08
  • Frequency enumeration of DNA subsequences from large-scale sequences using linear codes, Yoichi Takenaka,Hideo Matsuda, International Conference on Intelligent Systems for Molecular Biology, 2003/07
  • P-Quasi complete linkage clustering method for gene-expression profiles based on distribution analysis, Shigeto Seno,Reiji Teramoto,Yoichi Takenaka,Hideo Matsuda, International Conference on Intelligent Systems for Molecular Biology, 2003/07
  • バイオグリッドプロジェクト「スーパーコンピュータネットワークの構築」 : アカデミック分野での応用(<特集>グリッドコンピューティング), 伊達進,奥村利幸,秋山豊和,下條真司,松田秀雄,中村春木, 情報処理, Vol. 44, No. 6, p. 601-607, 2003/06/15
  • 階層的な大規模並列木探索によるタンパク質立体配座解析システムESCAPE/Hi, 安藤 誠,秋山 泰,松田秀雄, 情報処理学会論文誌, Vol. 42, No. SIG09, p. 36-44, 2001
  • 大腸菌ゲノムデータベース(GenoBase), 旭弘子,荒武,松田秀雄,磯野克己,森浩禎, 日本分子生物学会年会プログラム・講演要旨集, Vol. 23rd, 2000
  • 概念階層を持つパターン言語の帰納学習による遺伝子クラスタ解析への応用, 遠里由佳子,松田秀雄,橋本昭洋, 情報処理学会研究報告. MPS, 数理モデル化と問題解決研究報告, Vol. 99, No. 76, p. 41-44, 1999/09/21
  • 文書画像からの分子系統樹データの抽出手法とその評価, 廣中大雅,田部智宏,吉川孝伸,松田秀雄,橋本昭洋, 情報処理学会研究報告. データベース・システム研究会報告, Vol. 99, No. 61, p. 37-42, 1999/07/21
  • XMLによる分子系統樹データの表現とその検索手法, 増山智久,岸浪リサ,吉川孝伸,松田秀雄,橋本昭洋, 情報処理学会研究報告. データベース・システム研究会報告, Vol. 99, No. 61, p. 31-36, 1999/07/21
  • クラスター分析を用いた微生物ゲノムORFの機能ドメインの抽出, 荒武,鈴木健二,松田秀雄,森浩禎, 日本分子生物学会年会プログラム・講演要旨集, Vol. 22nd, 1999
  • 広域WWWキャッシュサーバネットワークの設計, 川本芳久,中西通雄,松田秀雄,橋本昭洋,坂本佳則, 情報処理学会研究報告. マルチメディア通信と分散処理研究会報告, Vol. 99, No. 4, p. 145-150, 1999
  • デジタル信号処理に基づく遺伝子のクラスタリング, 坪井宣洋,松田秀雄,橋本昭洋, 情報処理学会研究報告. MPS, 数理モデル化と問題解決研究報告, Vol. 99, No. 96, p. 5-8, 1999
  • ゲノムプロジェクトにおける情報科学技術の応用 : 遺伝子配列解析を中心に, 松田秀雄, 電子情報通信学会ソサイエティ大会講演論文集, Vol. 1998, p. 357-358, 1998/09/07
  • 最大密度部分グラフ探索アルゴリズムを用いたアミノ酸配列集合からの共通保存領域の抽出手法, 竹谷英泰,谷秀城,松田秀雄,橋本昭洋, 情報処理学会研究報告. MPS, 数理モデル化と問題解決研究報告, Vol. 98, No. 67, p. 49-54, 1998/07/24
  • 一般化suffix arrayによるタンパク質アミノ酸配列集合からの文字列出現特性の解析, 川口俊朗,粕川雄也,松田秀雄,橋本昭洋, 情報処理学会研究報告. MPS, 数理モデル化と問題解決研究報告, Vol. 98, No. 67, p. 55-60, 1998/07/24
  • アミノ酸残基の分布に基づくタンパク質局所構造のモデル化, 喜多川哲,松田秀雄,橋本昭洋, 情報処理学会研究報告. MPS, 数理モデル化と問題解決研究報告, Vol. 98, No. 67, p. 43-48, 1998/07/24
  • 反転と転移によるゲノム再編成の近似アルゴリズム, 松田秀雄,山中啓之,橋本昭洋, 情報処理学会研究報告. MPS, 数理モデル化と問題解決研究報告, Vol. 98, No. 44, p. 13-18, 1998/05/22
  • 単語の共起頻度と範囲内重要度による分子生物学データベースの関連エントリ探索手法, 川本芳久,日浦太,中西通雄,松田秀雄,橋本昭洋, 電子情報通信学会技術研究報告. DE, データ工学, Vol. 98, No. 42, p. 15-22, 1998/05/13
  • マルチエージェントによる異種の分子生物学データベースの統合と検索の実現, 三上知親,今井孝,吉川孝伸,粕川雄也,松田秀雄,中西通雄,橋本昭洋, 情報処理学会研究報告. データベース・システム研究会報告, Vol. 98, No. 2, p. 121-128, 1998
  • 配列類似度に基づく大規模配列集合の高速分類アルゴリズム, 岩出智行,石原達也,松田秀雄,橋本昭洋, 情報処理学会研究報告. AL, アルゴリズム研究会報告, Vol. 96, No. 67, p. 33-40, 1996/07/24
  • タンパク質における立体構造のコード化とその解析, 多田淳一,谷口文浩,松田秀雄,橋本昭洋, 情報処理学会研究報告. AL, アルゴリズム研究会報告, Vol. 96, No. 67, p. 41-48, 1996/07/24
  • 遺伝的アルゴリズムによる生物の系統関係の探索, 松田 秀雄, 自律分散システム・シンポジウム資料 = SICE Symposium on Decentralized Autonomous Systems, Vol. 8, p. 207-212, 1996
  • 遺伝子情報解析の計算機支援, 松田秀雄,橋本昭洋, 電子情報通信学会誌, Vol. 79, No. 12, p. 1204-1212, 1996
  • 2種類の部分木交叉オペレータを持つ遺伝的アルゴリズムによる最尤分子系統樹の探索, 松田秀雄,山下浩,金田悠紀夫, 情報処理学会研究報告. MPS, 数理モデル化と問題解決研究報告, Vol. 96, No. 118, p. 48-56, 1996
  • OR並列Prolog処理系のための分散管理方式による負荷分散機構のAP1000上での実現, 川畑徹,内垣雄一郎,松田秀雄,金田悠紀夫, 情報処理学会研究報告. PRO, [プログラミング], Vol. 95, No. 82, p. 89-96, 1995/08/24
  • 超並列計算機JUMP-1におけるディスク入出力サブシステムの実装, 中野智行,中條拓伯,岡田勉,松本尚,小畑正貴,松田秀雄,平木敬,金田悠紀夫, 情報処理学会研究報告. 計算機アーキテクチャ研究会報告, Vol. 95, No. 80, p. 137-144, 1995/08/23
  • I/O Sybsystem for the Massively Parallel Computer JUMP-1., 中条拓伯,岡田勉,松本尚,小畑正貴,松田秀雄,平木敬,金田悠紀夫, 並列処理シンポジウム論文集, Vol. 1995, p. 67-74, 1995/05
  • 遺伝的アルゴリズムによる分子系統樹の作成, 松田秀雄,山下浩,金田悠紀夫, 情報処理学会研究報告. 情報学基礎研究会報告, Vol. 95, No. 17, p. 15-22, 1995
  • An I/O Access Method for the Massively Parallel Computer JUMP-1., 岡田勉,中条拓伯,松本尚,小畑正貴,松田秀雄,平木敬,金田悠紀夫, 情報処理学会研究報告, Vol. 94, No. 66(ARC-107), p. 177-184, 1994/07/21
  • I/O Subsystem for the Massively Parallel Computer JUMP-1., 中条拓伯,松本尚,小畑正貴,松田秀雄,平木敬,金田悠紀夫, 情報処理学会研究報告, Vol. 94, No. 13(ARC-104 OS-62), p. 113-120, 1994/01/27
  • 超並列計算機におけるワークステーションクラスタ・ファイルシステム, 中條 拓伯,松田 秀雄,金田 悠紀夫, 情報処理学会計算機アーキテクチャ研究会報告, p. 185-192, 1994
  • 超並列プロトタイプ計算機 JUMP-1 の構想, 平木 敬,天野 英晴,久我 守弘,末吉 敏則,工藤 知宏,中島 浩,中條 拓伯,松田 秀雄,松本 尚,森 眞一郎, 情処処理学会計算機アーキテクチャ研究会報告, p. 73-84, 1993
  • 論理型言語の最近の動向 (新世代のソフトウエア特集号), 田村 直之,松田 秀雄, システム・制御・情報, システム制御情報学会, Vol. 33, No. 3, p. p143-150, 1989/03

Publications

  • Transcription Factor Regulatory Networks: Methods and Protocols, E. Miyamoto-Sato, Humana Press, Springer Science+Business Media, ISBN:9781493908042, 2014/06
  • バイオインフォマティクス事典, 日本バイオインフォマティクス, 共立出版, 2006/06
  • Genome Informatics Vol.12, Hideo Matsuda,Satoru Miyano,Toshihisa Takagi,Limsoon Wong, Universal Academy Press, 2001/12

Industrial Property Rights

  • マルチプレックス大腸がんマーカーパネル, 渡辺真,松尾英一,金子直樹,森正樹,西村紀,竹政伊知朗,松田秀雄,瀬尾茂人,松原稔哉, 特許5805518, 特願2011-280149, 出願日:2011/12/21, 登録日:2015/09/11
  • 評価方法、評価装置およびプログラム, 石井優,菊田順一,松田秀雄,瀬尾茂人, 特願2018-007571, 出願日:2018/01/19

Awards

  • The Excellent Paper Award Published in Bioscience, Biotechnology, & Biochemistry, Mari Iwase,Shoko Sakai,Shigeto Seno,Yu-Sheng Yeh,Tony Kuo,Haruya Takahashi,Wataru Nomura,Huei-Fen Jheng,Paul Horton,Naoki Osato,Hideo Matsuda,Kazuo Inoue,Teruo Kawada,Tsuyoshi Goto, Japan Society for Bioscience, Biotechnology, and Agrochemistry, 2021/03
  • シニア会員, 情報処理学会, 2014/09
  • Outstanding Paper Award, Tomoshige Ohno,Shigeto Seno,Yoichi Takenaka,Hideo Matsuda, Information Processing Society of Japan, 2014/06
  • Best Paper Award, Yukito Watanabe,Shigeto Seno,Yoichi Takenaka,Hideo Matsuda, Asia-Pacific Bioinformatics Conference 2012, 2012/01
  • 論文賞, 瀧浩平,寺本礼仁,竹中要一,松田秀雄, 情報科学技術フォーラム, 2004/09
  • 学術奨励賞, 情報処理学会, 1986/10

Presentations

  • Large-Scale Gene Regulatory Network Analysis for Adipocyte Differentiation on High-Performance Computer, Hideo Matsuda, The 23rd International Conference on Genome Informatics (GIW2012), 2012/12/12
  • Reconstruction of Gene Regulatory Networks for Drug Target Discovery, Hideo Matsuda, The 3rd National Seminar and Workshop on Computer Aided-Drug Design: Virtual Screening (CADD2010), 2010/12/03
  • Inference of Gene Regulatory Network for Cell Differentiations, Hideo Matsuda, The Korean Society for Bioinformatics and Systems Biology (KSBSB) Summer School 2010, 2010/07/02

Committee Memberships

  • Japanese Society for Bioinformatics, Board Member, 2019/03 - Present
  • 科学技術振興機構バイオサイエンスデータベースセンター基盤技術分科会, 主査, 2017/10 - Present
  • 東洋紡バイオテクノロジー研究財団, 評議員, 2013/05 - Present
  • 科学技術振興機構バイオサイエンスデータベースセンター, 運営委員, 2011/10 - Present