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ORCIDBibTeX records: Hideo Matsuda
@article{DBLP:journals/biosystems/HosodaSMMOKK24,
author = {Kazufumi Hosoda and
Shigeto Seno and
Naomi Murakami and
Hideo Matsuda and
Yutaka Osada and
Rikuto Kamiura and
Michio Kondoh},
title = {Synthetic model ecosystem of 12 cryopreservable microbial species
allowing for a noninvasive approach},
journal = {Biosyst.},
volume = {235},
pages = {105087},
year = {2024},
url = {https://doi.org/10.1016/j.biosystems.2023.105087},
doi = {10.1016/J.BIOSYSTEMS.2023.105087},
timestamp = {Fri, 08 Mar 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/biosystems/HosodaSMMOKK24.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/icbbb/MasudaSM24,
author = {Keigo Masuda and
Yoshiaki Sota and
Hideo Matsuda},
title = {Accurate Detection of Fusion Genes in Long-Read Transcriptome Datasets
from Multiple Cancer Cell Lines},
booktitle = {Proceedings of the 14th International Conference on Bioscience, Biochemistry
and Bioinformatics, {ICBBB} 2024, Kyoto, Japan, January 12-15, 2024},
pages = {7--13},
publisher = {{ACM}},
year = {2024},
url = {https://doi.org/10.1145/3640900.3640909},
doi = {10.1145/3640900.3640909},
timestamp = {Mon, 01 Apr 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/icbbb/MasudaSM24.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/icbet/NagamuraSSMM23,
author = {Toru Nagamura and
Shigeto Seno and
Hironori Shigeta and
Tomohiro Mashita and
Hideo Matsuda},
title = {Cell Tracking via Reinforcement Learning with Microscopic Image Simulator},
booktitle = {Proceedings of the 2023 13th International Conference on Biomedical
Engineering and Technology, {ICBET} 2023, Tokyo, Japan, June 15-18,
2023},
pages = {16--22},
publisher = {{ACM}},
year = {2023},
url = {https://doi.org/10.1145/3620679.3620682},
doi = {10.1145/3620679.3620682},
timestamp = {Sun, 31 Dec 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/icbet/NagamuraSSMM23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/icbet/NishiYSHM23,
author = {Koki Nishi and
Junko Yoshida and
Shigeto Seno and
Kyoji Horie and
Hideo Matsuda},
title = {Pseudotime-based Deep Learning of Gene Regulatory Relationships from
Single-Cell Expression Data},
booktitle = {Proceedings of the 2023 13th International Conference on Biomedical
Engineering and Technology, {ICBET} 2023, Tokyo, Japan, June 15-18,
2023},
pages = {56--62},
publisher = {{ACM}},
year = {2023},
url = {https://doi.org/10.1145/3620679.3620688},
doi = {10.1145/3620679.3620688},
timestamp = {Sun, 31 Dec 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/icbet/NishiYSHM23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/icbbb/MurayamaM22,
author = {Kosho Murayama and
Hideo Matsuda},
title = {A Method for Detection of Markers for Epithelial-Mesenchymal Transition
based on Single Cell Transcriptomic Data},
booktitle = {{ICBBB} 2022: 12th International Conference on Bioscience, Biochemistry
and Bioinformatics, Tokyo, Japan, January 7 - 10, 2022},
pages = {57--62},
publisher = {{ACM}},
year = {2022},
url = {https://doi.org/10.1145/3510427.3510436},
doi = {10.1145/3510427.3510436},
timestamp = {Wed, 24 Jan 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/icbbb/MurayamaM22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/icbbe/NomuraM22,
author = {Akihiro Nomura and
Hideo Matsuda},
title = {Inference of Cell-Cell Communication for Detecting Immune Disease-Associated
Signaling Pathways using Single-Cell RNA-seq},
booktitle = {Proceedings of the 9th International Conference on Biomedical and
Bioinformatics Engineering, {ICBBE} 2022, Kyoto, Japan, November 10-13,
2022},
pages = {74--80},
publisher = {{ACM}},
year = {2022},
url = {https://doi.org/10.1145/3574198.3574210},
doi = {10.1145/3574198.3574210},
timestamp = {Tue, 28 Mar 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/icbbe/NomuraM22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/icbbe/MasudaSM22,
author = {Keigo Masuda and
Yoshiaki Sota and
Hideo Matsuda},
title = {A Novel Method for Fusion Gene Detection using Both End-Fragment Sequences
of Long Reads},
booktitle = {Proceedings of the 9th International Conference on Biomedical and
Bioinformatics Engineering, {ICBBE} 2022, Kyoto, Japan, November 10-13,
2022},
pages = {88--92},
publisher = {{ACM}},
year = {2022},
url = {https://doi.org/10.1145/3574198.3574212},
doi = {10.1145/3574198.3574212},
timestamp = {Tue, 28 Mar 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/icbbe/MasudaSM22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bcb/FujimotoMRSSUIB21,
author = {Kenji Fujimoto and
Tsubasa Mizugaki and
Utkrisht Rajkumar and
Hironori Shigeta and
Shigeto Seno and
Yutaka Uchida and
Masaru Ishii and
Vineet Bafna and
Hideo Matsuda},
editor = {Hongmei Jiang and
Xiuzhen Huang and
Jiajie Zhang},
title = {A CNN-based cell tracking method for multi-slice intravital imaging
data},
booktitle = {{BCB} '21: 12th {ACM} International Conference on Bioinformatics,
Computational Biology and Health Informatics, Gainesville, Florida,
USA, August 1-4, 2021},
pages = {35:1--35:7},
publisher = {{ACM}},
year = {2021},
url = {https://doi.org/10.1145/3459930.3469559},
doi = {10.1145/3459930.3469559},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/bcb/FujimotoMRSSUIB21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jbcb/SotaSSOSNM19,
author = {Yoshiaki Sota and
Shigeto Seno and
Hironori Shigeta and
Naoki Osato and
Masafumi Shimoda and
Shinzaburo Noguchi and
Hideo Matsuda},
title = {Improvement of detection performance of fusion genes from RNA-seq
data by clustering short reads},
journal = {J. Bioinform. Comput. Biol.},
volume = {17},
number = {3},
pages = {1940008:1--1940008:12},
year = {2019},
url = {https://doi.org/10.1142/S0219720019400080},
doi = {10.1142/S0219720019400080},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jbcb/SotaSSOSNM19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/KapilevichSMT19,
author = {Viacheslav Kapilevich and
Shigeto Seno and
Hideo Matsuda and
Yoichi Takenaka},
title = {Chromatin 3D Reconstruction from Chromosomal Contacts Using a Genetic
Algorithm},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {16},
number = {5},
pages = {1620--1626},
year = {2019},
url = {https://doi.org/10.1109/TCBB.2018.2814995},
doi = {10.1109/TCBB.2018.2814995},
timestamp = {Thu, 27 Jul 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/KapilevichSMT19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bibe/ShigetaSNUKIM19,
author = {Hironori Shigeta and
Shigeto Seno and
Shino Nishizawa and
Yutaka Uchida and
Junichi Kikuta and
Masaru Ishii and
Hideo Matsuda},
title = {Analyzing Leukocyte Migration Trajectories by Deformable Image Matching},
booktitle = {19th {IEEE} International Conference on Bioinformatics and Bioengineering,
{BIBE} 2019, Athens, Greece, October 28-30, 2019},
pages = {94--98},
publisher = {{IEEE}},
year = {2019},
url = {https://doi.org/10.1109/BIBE.2019.00025},
doi = {10.1109/BIBE.2019.00025},
timestamp = {Tue, 29 Dec 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/bibe/ShigetaSNUKIM19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bibm/OsatoSSUKIM19,
author = {Naoki Osato and
Hironori Shigeta and
Shigeto Seno and
Yutaka Uchida and
Junichi Kikuta and
Masaru Ishii and
Hideo Matsuda},
editor = {Illhoi Yoo and
Jinbo Bi and
Xiaohua Hu},
title = {Single-cell Transcriptome Analysis of Mouse Leukocytes in Inflammatory
Stimulation},
booktitle = {2019 {IEEE} International Conference on Bioinformatics and Biomedicine,
{BIBM} 2019, San Diego, CA, USA, November 18-21, 2019},
pages = {1229--1231},
publisher = {{IEEE}},
year = {2019},
url = {https://doi.org/10.1109/BIBM47256.2019.8983394},
doi = {10.1109/BIBM47256.2019.8983394},
timestamp = {Fri, 09 Apr 2021 17:11:15 +0200},
biburl = {https://dblp.org/rec/conf/bibm/OsatoSSUKIM19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/TakenakaMSM18,
author = {Yoichi Takenaka and
Kazuma Mikami and
Shigeto Seno and
Hideo Matsuda},
title = {Automated transition analysis of activated gene regulation during
diauxic nutrient shift in Escherichia coli and adipocyte differentiation
in mouse cells},
journal = {{BMC} Bioinform.},
volume = {19-S},
number = {4},
pages = {49--59},
year = {2018},
url = {https://doi.org/10.1186/s12859-018-2072-y},
doi = {10.1186/S12859-018-2072-Y},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/TakenakaMSM18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bibe/SotaSSOSNM18,
author = {Yoshiaki Sota and
Shigeto Seno and
Hironori Shigeta and
Naoki Osato and
Masafumi Shimoda and
Shinzaburo Noguchi and
Hideo Matsuda},
title = {Detection of Fusion Genes from Human Breast Cancer Cell-Line RNA-Seq
Data Using Shifted Short Read Clustering},
booktitle = {18th {IEEE} International Conference on Bioinformatics and Bioengineering,
{BIBE} 2018, Taichung, Taiwan, October 29-31, 2018},
pages = {159--162},
publisher = {{IEEE}},
year = {2018},
url = {https://doi.org/10.1109/BIBE.2018.00038},
doi = {10.1109/BIBE.2018.00038},
timestamp = {Mon, 26 Jun 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/bibe/SotaSSOSNM18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bibm/EtoHSM18,
author = {Mitsuhiro Eto and
Wataru Hirota and
Shigeto Seno and
Hideo Matsuda},
editor = {Huiru Jane Zheng and
Zoraida Callejas and
David Griol and
Haiying Wang and
Xiaohua Hu and
Harald H. H. W. Schmidt and
Jan Baumbach and
Julie Dickerson and
Le Zhang},
title = {Asymmetric Integration of Single-Cell Transcriptomic Data using Latent
Dirichlet Allocation and Procrustes Analysis},
booktitle = {{IEEE} International Conference on Bioinformatics and Biomedicine,
{BIBM} 2018, Madrid, Spain, December 3-6, 2018},
pages = {2129--2135},
publisher = {{IEEE} Computer Society},
year = {2018},
url = {https://doi.ieeecomputersociety.org/10.1109/BIBM.2018.8621115},
doi = {10.1109/BIBM.2018.8621115},
timestamp = {Fri, 24 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/bibm/EtoHSM18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jbcb/ShigetaMKSTIM17,
author = {Hironori Shigeta and
Tomohiro Mashita and
Junichi Kikuta and
Shigeto Seno and
Haruo Takemura and
Masaru Ishii and
Hideo Matsuda},
title = {Bone marrow cavity segmentation using graph-cuts with wavelet-based
texture feature},
journal = {J. Bioinform. Comput. Biol.},
volume = {15},
number = {5},
pages = {1740004:1--1740004:16},
year = {2017},
url = {https://doi.org/10.1142/S0219720017400042},
doi = {10.1142/S0219720017400042},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jbcb/ShigetaMKSTIM17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bibe/SotaSTNM16,
author = {Yoshiaki Sota and
Shigeto Seno and
Yoichi Takenaka and
Shinzaburo Noguchi and
Hideo Matsuda},
title = {Comparative Analysis of Transformation Methods for Gene Expression
Profiles in Breast Cancer Datasets},
booktitle = {16th {IEEE} International Conference on Bioinformatics and Bioengineering,
{BIBE} 2016, Taichung, Taiwan, October 31 - November 2, 2016},
pages = {328--333},
publisher = {{IEEE} Computer Society},
year = {2016},
url = {https://doi.org/10.1109/BIBE.2016.51},
doi = {10.1109/BIBE.2016.51},
timestamp = {Mon, 26 Jun 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/bibe/SotaSTNM16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/icpr/ShigetaMKSTMI16,
author = {Hironori Shigeta and
Tomohiro Mashita and
Junichi Kikuta and
Shigeto Seno and
Haruo Takemura and
Hideo Matsuda and
Masaru Ishii},
title = {A bone marrow cavity segmentation method using wavelet-based texture
feature},
booktitle = {23rd International Conference on Pattern Recognition, {ICPR} 2016,
Canc{\'{u}}n, Mexico, December 4-8, 2016},
pages = {2133--2138},
publisher = {{IEEE}},
year = {2016},
url = {https://doi.org/10.1109/ICPR.2016.7899951},
doi = {10.1109/ICPR.2016.7899951},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/icpr/ShigetaMKSTMI16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jbcb/TakenakaSM15,
author = {Yoichi Takenaka and
Shigeto Seno and
Hideo Matsuda},
title = {Detecting shifts in gene regulatory networks during time-course experiments
at single-time-point temporal resolution},
journal = {J. Bioinform. Comput. Biol.},
volume = {13},
number = {5},
pages = {1543002:1--1543002:18},
year = {2015},
url = {https://doi.org/10.1142/S0219720015430027},
doi = {10.1142/S0219720015430027},
timestamp = {Wed, 24 Mar 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jbcb/TakenakaSM15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/icpr/ShigetaMKKSTMI14,
author = {Hironori Shigeta and
Tomohiro Mashita and
Takeshi Kaneko and
Junichi Kikuta and
Shigeto Seno and
Haruo Takemura and
Hideo Matsuda and
Masaru Ishii},
title = {A Graph Cuts Image Segmentation Method for Quantifying Barrier Permeation
in Bone Tissue},
booktitle = {1st Workshop on Pattern Recognition Techniques for Indirect Immunofluorescence
Images, I3A@ICPR 2014, Stockholm, Sweden, August 24, 2014},
pages = {16--19},
publisher = {{IEEE} Computer Society},
year = {2014},
url = {https://doi.org/10.1109/I3A.2014.22},
doi = {10.1109/I3A.2014.22},
timestamp = {Fri, 24 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/icpr/ShigetaMKKSTMI14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/icpr/MashitaUSKKSIMT14,
author = {Tomohiro Mashita and
Jun Usam and
Hironori Shigeta and
Yoshihiro Kuroda and
Junichi Kikuta and
Shigeto Seno and
Masaru Ishii and
Hideo Matsuda and
Haruo Takemura},
title = {A Segmentation Method for Bone Marrow Cavity Imaging Using Graph Cuts},
booktitle = {1st Workshop on Pattern Recognition Techniques for Indirect Immunofluorescence
Images, I3A@ICPR 2014, Stockholm, Sweden, August 24, 2014},
pages = {20--23},
publisher = {{IEEE} Computer Society},
year = {2014},
url = {https://doi.org/10.1109/I3A.2014.21},
doi = {10.1109/I3A.2014.21},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/icpr/MashitaUSKKSIMT14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcgenomics/WatanabeSTM12,
author = {Yukito Watanabe and
Shigeto Seno and
Yoichi Takenaka and
Hideo Matsuda},
title = {An estimation method for inference of gene regulatory net-work using
Bayesian network with uniting of partial problems},
journal = {{BMC} Genom.},
volume = {13},
number = {{S-1}},
pages = {S12},
year = {2012},
url = {https://doi.org/10.1186/1471-2164-13-S1-S12},
doi = {10.1186/1471-2164-13-S1-S12},
timestamp = {Mon, 11 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcgenomics/WatanabeSTM12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/NakazatoBMT09,
author = {Takeru Nakazato and
Hidemasa Bono and
Hideo Matsuda and
Toshihisa Takagi},
title = {Gendoo: Functional profiling of gene and disease features using MeSH
vocabulary},
journal = {Nucleic Acids Res.},
volume = {37},
number = {Web-Server-Issue},
pages = {166--169},
year = {2009},
url = {https://doi.org/10.1093/nar/gkp483},
doi = {10.1093/NAR/GKP483},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/NakazatoBMT09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/isb/NakazatoTMMBA08,
author = {Takeru Nakazato and
Toru Takinaka and
Hironori Mizuguchi and
Hideo Matsuda and
Hidemasa Bono and
Minoru Asogawa},
title = {BioCompass: {A} Novel Functional Inference Tool that Utilizes MeSH
Hierarchy to Analyze Groups of Genes},
journal = {Silico Biol.},
volume = {8},
number = {1},
pages = {53--61},
year = {2008},
url = {http://content.iospress.com/articles/in-silico-biology/isb00343},
timestamp = {Thu, 20 Aug 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/isb/NakazatoTMMBA08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/mbec/MaekawaMTM07,
author = {Sami Maekawa and
Atsuko Matsumoto and
Yoichi Takenaka and
Hideo Matsuda},
title = {Tissue-specific functions based on information content of gene ontology
using cap analysis gene expression},
journal = {Medical Biol. Eng. Comput.},
volume = {45},
number = {11},
pages = {1029--1036},
year = {2007},
url = {https://doi.org/10.1007/s11517-007-0274-y},
doi = {10.1007/S11517-007-0274-Y},
timestamp = {Wed, 27 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/mbec/MaekawaMTM07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/eScience/Matsuda05,
author = {Hideo Matsuda},
title = {A Grid Environment for Data Integration of Scientific Databases},
booktitle = {First International Conference on e-Science and Grid Technologies
(e-Science 2005), 5-8 December 2005, Melbourne, Australia},
pages = {3--4},
publisher = {{IEEE} Computer Society},
year = {2005},
url = {https://doi.org/10.1109/E-SCIENCE.2005.5},
doi = {10.1109/E-SCIENCE.2005.5},
timestamp = {Fri, 24 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/eScience/Matsuda05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/icde/KawamuraKWFKYTDSM05,
author = {Gen Kawamura and
Masato Kitajima and
Kentaro Wakatsuki and
Takehiro Furudate and
Takahiro Kosaka and
Kazuto Yamazaki and
Reiji Teramoto and
Susumu Date and
Shinji Shimojo and
Hideo Matsuda},
title = {A Grid-based Information Integration System for Drug Discovery},
booktitle = {Proceedings of the 21st International Conference on Data Engineering
Workshops, {ICDE} 2005, 5-8 April 2005, Tokyo, Japan},
pages = {1167},
publisher = {{IEEE} Computer Society},
year = {2005},
url = {https://doi.org/10.1109/ICDE.2005.163},
doi = {10.1109/ICDE.2005.163},
timestamp = {Thu, 23 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/icde/KawamuraKWFKYTDSM05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/saint/KosakaDMS05,
author = {Takahiro Kosaka and
Susumu Date and
Hideo Matsuda and
Shinji Shimojo},
title = {Designing a Rule-Based Environment to Interoperate Life-Scientific
Ontologies for Drug Discovery},
booktitle = {2005 {IEEE/IPSJ} International Symposium on Applications and the Internet
Workshops {(SAINT} 2005 Workshops), 31 January - 4 February 2005,
Trento, Italy},
pages = {324--327},
publisher = {{IEEE} Computer Society},
year = {2005},
url = {https://doi.org/10.1109/SAINTW.2005.1620040},
doi = {10.1109/SAINTW.2005.1620040},
timestamp = {Thu, 23 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/saint/KosakaDMS05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/KawajiTM04,
author = {Hideya Kawaji and
Yoichi Takenaka and
Hideo Matsuda},
title = {Graph-based clustering for finding distant relationships in a large
set of protein sequences},
journal = {Bioinform.},
volume = {20},
number = {2},
pages = {243--252},
year = {2004},
url = {https://doi.org/10.1093/bioinformatics/btg397},
doi = {10.1093/BIOINFORMATICS/BTG397},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/KawajiTM04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/NagashimaMSPKS04,
author = {Takeshi Nagashima and
Hideo Matsuda and
Diego G. Silva and
Nikolai Petrovsky and
Akihiko Konagaya and
Christian Sch{\"{o}}nbach},
title = {{FREP:} a database of functional repeats in mouse cDNAs},
journal = {Nucleic Acids Res.},
volume = {32},
number = {Database-Issue},
pages = {471--475},
year = {2004},
url = {https://doi.org/10.1093/nar/gkh123},
doi = {10.1093/NAR/GKH123},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/NagashimaMSPKS04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ngc/NakamuraDMS04,
author = {Haruki Nakamura and
Susumu Date and
Hideo Matsuda and
Shinji Shimojo},
title = {A Challenge towards Next-Generation Research Infrastructure for Advanced
Life Science},
journal = {New Gener. Comput.},
volume = {22},
number = {2},
pages = {157--166},
year = {2004},
url = {https://doi.org/10.1007/BF03040954},
doi = {10.1007/BF03040954},
timestamp = {Tue, 29 Dec 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ngc/NakamuraDMS04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/csb/TakiTTM04,
author = {Kohei Taki and
Reiji Teramoto and
Yoichi Takenaka and
Hideo Matsuda},
title = {Inference of Gene Regulatory Network Based on Module Network Model
with Gene Functional Classifications},
booktitle = {3rd International {IEEE} Computer Society Computational Systems Bioinformatics
Conference, {CSB} 2004, Stanford, CA, USA, August 16-19, 2004},
pages = {632--633},
publisher = {{IEEE} Computer Society},
year = {2004},
url = {https://doi.org/10.1109/CSB.2004.1332524},
doi = {10.1109/CSB.2004.1332524},
timestamp = {Thu, 23 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/csb/TakiTTM04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/csb/MiyakeTM04,
author = {Shoko Miyake and
Yoichi Takenaka and
Hideo Matsuda},
title = {A Graph Analysis Method to Detect Metabolic Sub-Networks Based on
Phylogenetic Profile},
booktitle = {3rd International {IEEE} Computer Society Computational Systems Bioinformatics
Conference, {CSB} 2004, Stanford, CA, USA, August 16-19, 2004},
pages = {634--635},
publisher = {{IEEE} Computer Society},
year = {2004},
url = {https://doi.org/10.1109/CSB.2004.1332525},
doi = {10.1109/CSB.2004.1332525},
timestamp = {Thu, 23 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/csb/MiyakeTM04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/lsgrid/TohsatoKDSM04,
author = {Yukako Tohsato and
Takahiro Kosaka and
Susumu Date and
Shinji Shimojo and
Hideo Matsuda},
editor = {Akihiko Konagaya and
Kenji Satou},
title = {Heterogeneous Database Federation Using Grid Technology for Drug Discovery
Process},
booktitle = {Grid Computing in Life Science, First International Workshop on Life
Science Grid, {LSGRID} 2004, Kanazawa, Japan, May 31 - June 1, 2004,
Revised Selected andInvited Papers},
series = {Lecture Notes in Computer Science},
volume = {3370},
pages = {43--52},
publisher = {Springer},
year = {2004},
url = {https://doi.org/10.1007/978-3-540-32251-1\_5},
doi = {10.1007/978-3-540-32251-1\_5},
timestamp = {Tue, 29 Dec 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/lsgrid/TohsatoKDSM04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/isb/KasukawaBHOM03,
author = {Takeya Kasukawa and
Hidemasa Bono and
Yoshihide Hayashizaki and
Yasushi Okazaki and
Hideo Matsuda},
title = {MaXML: mouse annotation {XML}},
journal = {Silico Biol.},
volume = {4},
number = {1},
pages = {7--15},
year = {2003},
url = {http://content.iospress.com/articles/in-silico-biology/isb00113},
timestamp = {Thu, 20 Aug 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/isb/KasukawaBHOM03.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/dasfaa/MiyakeTTM03,
author = {Shoko Miyake and
Yukako Tohsato and
Yoichi Takenaka and
Hideo Matsuda},
title = {Clustering Method for Comparative Analysis between Genomes and Pathways},
booktitle = {Eighth International Conference on Database Systems for Advanced Applications
{(DASFAA} '03), March 26-28, 2003, Kyoto, Japan},
pages = {327--334},
publisher = {{IEEE} Computer Society},
year = {2003},
url = {https://doi.org/10.1109/DASFAA.2003.1192398},
doi = {10.1109/DASFAA.2003.1192398},
timestamp = {Fri, 24 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/dasfaa/MiyakeTTM03.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/expert/OnizukaNAM02,
author = {Kentaro Onizuka and
Tamotsu Noguchi and
Yutaka Akiyama and
Hideo Matsuda},
title = {Using Data Compression for Multidimensional Distribution Analysis},
journal = {{IEEE} Intell. Syst.},
volume = {17},
number = {3},
pages = {48--54},
year = {2002},
url = {https://doi.org/10.1109/MIS.2002.1005631},
doi = {10.1109/MIS.2002.1005631},
timestamp = {Sun, 25 Jul 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/expert/OnizukaNAM02.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/csb/MiyakeTM02,
author = {Shoko Miyake and
Yukako Tohsato and
Hideo Matsuda},
title = {An Application of a Pathway Alignment Method to Comparative Analysis
between Genome and Pathways},
booktitle = {1st {IEEE} Computer Society Bioinformatics Conference, {CSB} 2002,
Stanford, CA, USA, August 14-16, 2002},
pages = {329--329},
publisher = {{IEEE} Computer Society},
year = {2002},
url = {https://doi.org/10.1109/CSB.2002.1039356},
doi = {10.1109/CSB.2002.1039356},
timestamp = {Thu, 23 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/csb/MiyakeTM02.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/csb/SenoTM02,
author = {Shigeto Seno and
Reiji Teramoto and
Hideo Matsuda},
title = {P-quasi Complete Linkage Analysis for Gene-Expression Data},
booktitle = {1st {IEEE} Computer Society Bioinformatics Conference, {CSB} 2002,
Stanford, CA, USA, August 14-16, 2002},
pages = {342},
publisher = {{IEEE} Computer Society},
year = {2002},
url = {https://doi.org/10.1109/CSB.2002.1039365},
doi = {10.1109/CSB.2002.1039365},
timestamp = {Thu, 23 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/csb/SenoTM02.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/NoguchiMA01,
author = {Tamotsu Noguchi and
Hideo Matsuda and
Yutaka Akiyama},
title = {{PDB-REPRDB:} a database of representative protein chains from the
Protein Data Bank {(PDB)}},
journal = {Nucleic Acids Res.},
volume = {29},
number = {1},
pages = {219--220},
year = {2001},
url = {https://doi.org/10.1093/nar/29.1.219},
doi = {10.1093/NAR/29.1.219},
timestamp = {Sun, 25 Jul 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/NoguchiMA01.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/NoguchiOAMA00,
author = {Tamotsu Noguchi and
Kentaro Onizuka and
Makoto Ando and
Hideo Matsuda and
Yutaka Akiyama},
title = {Quick selection of representative protein chain sets based on customizable
requirements},
journal = {Bioinform.},
volume = {16},
number = {6},
pages = {520--526},
year = {2000},
url = {https://doi.org/10.1093/bioinformatics/16.6.520},
doi = {10.1093/BIOINFORMATICS/16.6.520},
timestamp = {Sun, 25 Jul 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/NoguchiOAMA00.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/scjapan/KasukawaNMH00,
author = {Takeya Kasukawa and
Michio Nakanishi and
Hideo Matsuda and
Akihiro Hashimoto},
title = {An efficient procedure for maintaining materialized views on distributed
database systems},
journal = {Syst. Comput. Jpn.},
volume = {31},
number = {5},
pages = {86--96},
year = {2000},
url = {https://doi.org/10.1002/(SICI)1520-684X(200005)31:5\&\#60;86::AID-SCJ8\&\#62;3.0.CO;2-W},
doi = {10.1002/(SICI)1520-684X(200005)31:5\&\#60;86::AID-SCJ8\&\#62;3.0.CO;2-W},
timestamp = {Wed, 13 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/scjapan/KasukawaNMH00.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ismb/TohsatoMH00,
author = {Yukako Tohsato and
Hideo Matsuda and
Akihiro Hashimoto},
editor = {Philip E. Bourne and
Michael Gribskov and
Russ B. Altman and
Nancy Jensen and
Debra A. Hope and
Thomas Lengauer and
Julie C. Mitchell and
Eric D. Scheeff and
Chris Smith and
Shawn Strande and
Helge Weissig},
title = {A Multiple Alignment Algorithm for Metabolic Pathway Analysis Using
Enzyme Hierarchy},
booktitle = {Proceedings of the Eighth International Conference on Intelligent
Systems for Molecular Biology, August 19-23, 2000, La Jolla / San
Diego, CA, {USA}},
pages = {376--383},
publisher = {{AAAI}},
year = {2000},
url = {http://www.aaai.org/Library/ISMB/2000/ismb00-038.php},
timestamp = {Thu, 13 Dec 2012 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/ismb/TohsatoMH00.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/pdpta/AndoAM00,
author = {Makoto Ando and
Yutaka Akiyama and
Hideo Matsuda},
editor = {Hamid R. Arabnia},
title = {Hierarchical Approach to Parallel Tree Search for Protein Conformational
Analysis},
booktitle = {Proceedings of the International Conference on Parallel and Distributed
Processing Techniques and Applications, {PDPTA} 2000, June 24-29,
2000, Las Vegas, Nevada, {USA}},
publisher = {{CSREA} Press},
year = {2000},
timestamp = {Mon, 08 Dec 2003 16:35:08 +0100},
biburl = {https://dblp.org/rec/conf/pdpta/AndoAM00.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcs/MatsudaIH99,
author = {Hideo Matsuda and
T. Ishihara and
Akihiro Hashimoto},
title = {Classifying Molecular Sequences Using a Linkage Graph With Their Pairwise
Similarities},
journal = {Theor. Comput. Sci.},
volume = {210},
number = {2},
pages = {305--325},
year = {1999},
url = {https://doi.org/10.1016/S0304-3975(98)00091-7},
doi = {10.1016/S0304-3975(98)00091-7},
timestamp = {Wed, 17 Feb 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/tcs/MatsudaIH99.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/pdpcs/NakajoMKMHK95,
author = {Hironori Nakajo and
Takashi Matsumoto and
Masaki Kohata and
Hideo Matsuda and
Kei Hiraki and
Yukio Kaneda},
editor = {M. H. Hamza},
title = {High Performance {I/O} System of the Distributed Shared-Memory Massively
Parallel Computer {JUMP-1}},
booktitle = {Proceedings of the Seventh {IASTED/ISMM} International Conference
on Parallel and Distributed Computing and Systems, Washington, D.C.,
USA, October 19-21, 1995},
pages = {470--473},
publisher = {{IASTED/ACTA} Press},
year = {1995},
timestamp = {Fri, 16 Oct 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/pdpcs/NakajoMKMHK95.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/OlsenMHO94,
author = {Gary J. Olsen and
Hideo Matsuda and
Ray Hagstrom and
Ross A. Overbeek},
title = {fastDNAmL: a tool for construction of phylogenetic trees of {DNA}
sequences using maximum likelihood},
journal = {Comput. Appl. Biosci.},
volume = {10},
number = {1},
pages = {41--48},
year = {1994},
url = {https://doi.org/10.1093/bioinformatics/10.1.41},
doi = {10.1093/BIOINFORMATICS/10.1.41},
timestamp = {Fri, 15 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/OlsenMHO94.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/lisp/MatsudaK94,
author = {Hideo Matsuda and
Yukio Kaneda},
title = {An Application of an OR-Parallel Prolog Systemto Phylogenetic Analysis},
journal = {{LISP} Symb. Comput.},
volume = {7},
number = {2-3},
pages = {211--229},
year = {1994},
timestamp = {Thu, 21 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/lisp/MatsudaK94.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ics/MatsudaOOK94,
author = {Hideo Matsuda and
Gary J. Olsen and
Ross A. Overbeek and
Yukio Kaneda},
editor = {John R. Gurd and
William Jalby},
title = {Fast phylogenetic analysis on a massively parallel machine},
booktitle = {Proceedings of the 8th international conference on Supercomputing,
{ICS} 1994, Manchester, UK, July 11-15, 1994},
pages = {297--302},
publisher = {{ACM}},
year = {1994},
url = {https://doi.org/10.1145/181181.181545},
doi = {10.1145/181181.181545},
timestamp = {Sat, 19 Oct 2019 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/ics/MatsudaOOK94.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ispan/HirakiAKSKNNMMM94,
author = {Kei Hiraki and
Hideharu Amano and
Morihiro Kuga and
Toshinori Sueyoshi and
Tomohiro Kudoh and
Hiroshi Nakashima and
Hironori Nakajo and
Hideo Matsuda and
Takashi Matsumoto and
Shin{-}ichiro Mori},
title = {Overview of the JUMP-1, an {MPP} prototype for general-purpose parallel
computations},
booktitle = {International Symposium on Parallel Architectures, Algorithms and
Networks, {ISPAN} 1994, Kanazawa, Japan, December 14-16, 1994},
pages = {427--434},
publisher = {{IEEE} Computer Society},
year = {1994},
url = {https://doi.org/10.1109/ISPAN.1994.367136},
doi = {10.1109/ISPAN.1994.367136},
timestamp = {Fri, 24 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/ispan/HirakiAKSKNNMMM94.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/psc/KanedaMS92,
author = {Yukio Kaneda and
Hideo Matsuda and
Shigeo Suzuka},
editor = {Robert H. Halstead Jr. and
Takayasu Ito},
title = {A Priority Control System for OR-Parallel Prolog and Its Performance
Evaluation},
booktitle = {Parallel Symbolic Computing: Languages, Systems, and Applications,
US/Japan Workshop, Cambridge, MA, USA, October 14-17, 1992, Proceedings},
series = {Lecture Notes in Computer Science},
volume = {748},
pages = {42--53},
publisher = {Springer},
year = {1992},
url = {https://doi.org/10.1007/BFb0018646},
doi = {10.1007/BFB0018646},
timestamp = {Tue, 14 May 2019 10:00:47 +0200},
biburl = {https://dblp.org/rec/conf/psc/KanedaMS92.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iwdm/MatsudaKMKM87,
author = {Hideo Matsuda and
M. Kohata and
T. Masuo and
Yukio Kaneda and
Sadao Maekawa},
editor = {Masaru Kitsuregawa and
Hidehiko Tanaka},
title = {Implementing Parallel Prolog System on Multiprocessor System {PARK}},
booktitle = {Database Machines and Knowledge Base Machines, 5th International Workshop
on Database Machines, Tokyo, Japan, 1987, Proceedings},
series = {The Kluwer International Series in Engineering and Computer Science},
volume = {43},
pages = {599--612},
publisher = {Kluwer},
year = {1987},
url = {https://doi.org/10.1007/978-1-4613-1679-4\_43},
doi = {10.1007/978-1-4613-1679-4\_43},
timestamp = {Fri, 19 May 2017 01:25:51 +0200},
biburl = {https://dblp.org/rec/conf/iwdm/MatsudaKMKM87.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ngc/KanedaTWMKM86,
author = {Yukio Kaneda and
Naoyuki Tamura and
Koichi Wada and
Hideo Matsuda and
Shumin Kuo and
Sadao Maekawa},
title = {Sequential Prolog Machine {PEK}},
journal = {New Gener. Comput.},
volume = {4},
number = {1},
pages = {51--66},
year = {1986},
url = {https://doi.org/10.1007/BF03037382},
doi = {10.1007/BF03037382},
timestamp = {Tue, 23 Jan 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ngc/KanedaTWMKM86.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/lp/MatsudaKMKM85,
author = {Hideo Matsuda and
M. Kohata and
T. Masuo and
Yukio Kaneda and
Sadao Maekawa},
editor = {Eiiti Wada},
title = {Parallel Prolog Machine {PARK:} Its Hardware Structure and Prolog
System},
booktitle = {Logic Programming '85, Proceedings of the 4th Conference, Tokyo, Japan,
July 1-3, 1985},
series = {Lecture Notes in Computer Science},
volume = {221},
pages = {35--43},
publisher = {Springer},
year = {1985},
url = {https://doi.org/10.1007/3-540-16479-0\_4},
doi = {10.1007/3-540-16479-0\_4},
timestamp = {Tue, 29 Dec 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/lp/MatsudaKMKM85.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/fgcs/TamuraWMKM84,
author = {Naoyuki Tamura and
Koichi Wada and
Hideo Matsuda and
Yukio Kaneda and
Sadao Maekawa},
title = {Sequential Prolog Machine {PEK}},
booktitle = {Proceedings of the International Conference on Fifth Generation Computer
Systems, {FGCS} 1984, Tokyo, Japan, November 6-9, 1984},
pages = {542--550},
publisher = {{OHMSHA} Ltd. Tokyo and North-Holland},
year = {1984},
timestamp = {Tue, 23 Jan 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/fgcs/TamuraWMKM84.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
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