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2025

2025.04

Comparative metabolome analysis of sake yeast with enhanced fermentation performance in sake fermentation conditions

J Biosci Bioeng.

  • Kotaro Mori1,2
  • Taisuke Seike1,3
  • Nobuyuki Okahashi1,3,4
  • Toshinari Takahashi 2
  • Fumio Matsuda1,3,4
詳細を表示
  • 1 Department of Bioinformatic Engineering, Graduate School of Information Science and Technology, Osaka University
  • 2 General Research Laboratory, Kiku-Masamune Sake Brewing Co. Ltd.
  • 3 DIndustrial Biotechnology Initiative Division, Institute for Open and Transdisciplinary Research Initiatives, Osaka University
  • 4 Osaka University Shimadzu Analytical Innovation Research Laboratory, Graduate School of Engineering, Osaka University
2025.04

Data-independent acquisition-based lipidomics reveals lipidome alterations associated with growth of Saccharomyces cerevisiae at low temperature

Journal of Bioscience and Bioengineering

  • Daiki Hara1
  • Nobuyuki Okahashi1,2,3
  • Taisuke Seike1,2
  • Junko Iida3,4
  • Fumio Matsuda1,2,3
詳細を表示
  • 1 Department of Bioinformatic Engineering, Graduate School of Information Science and Technology, Osaka University
  • 2 Industrial Biotechnology Initiative Division, Institute for Open and Transdisciplinary Research Initiatives, Osaka University
  • 3 Osaka University Shimadzu Analytical Innovation Research Laboratory, Graduate School of Engineering, Osaka University
  • 4 Analytical and Measuring Instruments Division, Shimadzu Corporation
2025.04

13C-metabolic flux analysis of Saccharomyces cerevisiae in complex media

Metab Eng Commun.

  • Hayato Fujiwara1
  • Nobuyuki Okahashi1,2,3
  • Taisuke Seike1
  • Fumio Matsuda1,2,3
詳細を表示
  • 1 Department of Bioinformatic Engineering, Graduate School of Information Science and Technology, Osaka University
  • 2 Osaka University Shimadzu Analytical Innovation Research Laboratories, Osaka University
  • 3 Industrial Biotechnology Initiative Division, Institute for Open and Transdisciplinary Research Initiatives, Osaka University
2025.04

Gas chromatography-mass spectrometry metabolic profiling and sensory evaluation of greenhouse mangoes (Mangifera indica L. 'Irwin') over multiple harvest seasons

J Biosci Bioeng.

  • Miwa Sato1,2
  • Eiichiro Fukusaki1,3,4
詳細を表示
  • 1 Department of Biotechnology, Graduate School of Engineering, Osaka University
  • 2 Miyazaki Agricultural Research Institute
  • 3 Osaka University Shimadzu Analytical Innovation Research Laboratory, Osaka University
  • 4 Institute for Open and Transdisciplinary Research Initiatives, Osaka University
2025.03

ΔΔ G Method for Elucidating Key Control Reactions from Relative Quantification Metabolome Data: Comparative Analysis of Yeast Glycolysis

Anal Chem.

  • Fumio Matsuda1,2
  • Ayumu Kamiyama1
  • Kazuki Yamasaki1
  • Taisuke Seike1
  • Nobuyuki Okahashi1,2
詳細を表示
  • 1 Graduate School of Information Science and Technology, Osaka University
  • 2 Osaka University Shimadzu Analytical Innovation Research Laboratories, Osaka University
2025.03

Separation of deaminated impurities from the desired oligonucleotides using supercritical fluid chromatography

Journal of Chromatography A

  • 〇Momoka Hayashida1,2,3
  • Risa Suzuki3
  • Shinnosuke Horie2,3,4
  • Junichi Masuda3
  • Takao Yamaguchi1
  • Satoshi Obika1
詳細を表示
  • 1 Graduate School of Pharmaceutical Sciences, Osaka University
  • 2 Osaka University Shimadzu Analytical Innovation Research Laboratories
  • 3 Shimadzu Corporation
  • 4 Shimadzu Europa GmbH
2025.03

Biological age prediction using a DNN model based on pathways of steroidogenesis

Science Advances

  • Qiuyi Wang†‡
  • Zi Wang
  • Kenji Mizuguchi
  • Toshifumi Takao
詳細を表示
  • Institute for Protein Research, Osaka University
  • these authors contributed equally to this work.
  • Shimadzu corporation.
2025.03

Application of silica monoliths for improved storage stability of metabolites in human plasma

Journal of Bioscience and Bioengineering

  • Kazuhiro Kawamura1,2,3
  • Eiichiro Fukusaki1,3,4
詳細を表示
  • 1 Department of Biotechnology, Graduate School of Engineering, Osaka University
  • 2 Life Science Business Department, Shimadzu Corporation
  • 3 Osaka University Shimadzu Analytical Innovation Research Laboratory, Osaka University
  • 4 Institute for Open and Transdisciplinary Research Initiatives
2025.03

Closed genome sequence of Fretibacterium fastidiosum, a potential contributor to periodontal disease

Microbiol Resour Announc.

  • Asuka Morie1
  • Mashu Kudoh2
  • Masae Kuboniwa2
  • Christian Rückert-Reed3,4
  • Tobias Busche3,4
  • Marion Eisenhut3,5
  • Eiichiro Fukusaki1,6,7
  • Andrea Bräutigam3,5
  • Bianca Laker3,5
詳細を表示
  • 1 Department of Biotechnology, Graduate School of Engineering, Osaka University
  • 2 Department of Preventive Dentistry, Graduate School of Dentistry, Osaka University
  • 3 Center for Biotechnology (CeBiTec), Bielefeld University
  • 4 Medical School OWL, Bielefeld University, Bielefeld, North Rhine-Westphalia, Germany
  • 5 Comp utational Biology, Faculty of Biology, Bielefeld University
  • 6 Osaka University Shimadzu Analytical Innovation Research Laboratories, Osaka University
  • 7 Industrial Biotechnology Initiative Division, Institute for Open and Transdisciplinary Research Initiative, Osaka University
2025.02

NCombinatorial Nonribosomal Peptide Synthetase Libraries Using the SEAM-Combi-OGAB Method

ACS Synth Biol.

  • Varada Jagadeesh1
  • Nobuyuki Okahashi2,3
  • Fumio Matsuda2,3
  • Kenji Tsuge1
  • Akihiko Kondo1
詳細を表示
  • 1 Graduate School of Science, Technology, and Innovation, Kobe University.
  • 2 Department of Bioinformatic Engineering, Graduate School of Information Science and Technology, Osaka University.
  • 3 Department of Biotechnology, Osaka University Shimadzu Analytical Innovation Research Laboratory, Graduate School of Engineering, Osaka University.
2025.02

Enhancing constituent estimation in nucleic acid mixture models using spectral annealing inference and MS/MS information

Frontiers in Analytical Science

  • Taichi Tomono1,2,3*
  • Satoshi HaraSatoshi Hara4
  • Junko Iida2,5
  • Takashi Washio1,6
詳細を表示
  • 1 The Institute of Scientific and Industrial Research, Osaka University
  • 2 Shimadzu Analytical Innovation Research Laboratories, Osaka University
  • 3 AI Solution Unit, Technology Research Laboratory, Shimadzu Corporation
  • 4 Graduate School of Informatics and Engineering, The University of Electro-Communication
  • 5 Life Science Business Department, Analytical and Measuring Instruments Division, Shimadzu Corporation
  • 6 Faculty of Business and Commerce, Kansai University
2025.02

Metabolic profiling reveals distinctive ripening dynamics in ethylene-treated Musa balbisiana cv. 'Pisang Klutuk Wulung' compared to commercial Cavendish banana

J Biosci Bioeng.

  • Cindy Novianti1,2
  • Lutfi Dewi Nirmala Sari2
  • Husna Nugrahapraja2,3,5
  • Sony Suhandono2,4
  • Fenny Martha Dwivany2,3,4,5
  • Sastia Prama Putri2,6,7
  • Eiichiro Fukusaki6,7,8
詳細を表示
  • 1 Doctoral Program of Biology, School of Life Sciences and Technology, Institut Teknologi Bandung.
  • 2 School of Life Sciences and Technology, Institut Teknologi Bandung
  • 3 Biosciences and Biotechnology Research Center, Institut Teknologi Bandung
  • 4 Nanoscience and Nanotechnology Research Center, Institut Teknologi Bandung
  • 5 Bali International Research Center for Banana, Gedung Widyasaba, Universitas Udayana
  • 6 Department of Biotechnology, Graduate School of Engineering, Osaka University
  • 7 Industrial Biotechnology Division, Institute for Open and Transdisciplinary Research Initiatives
  • 8 Osaka University-Shimadzu Analytical Innovation Research Laboratories, Osaka University
2025.01

Gas chromatography–mass spectrometry metabolic profiling and sensory evaluation of greenhouse mangoes (Mangifera indica L. ‘Irwin’) over multiple harvest seasons

Journal of Bioscience and Bioengineering

  • Miwa Sato1,2
  • Eiichiro Fukusaki1,3,4
詳細を表示
  • 1 Department of Biotechnology, Graduate School of Engineering, Osaka University
  • 2 Miyazaki Agricultural Research Institute
  • 3 Osaka University Shimadzu Analytical Innovation Research Laboratory, Osaka University
  • 4 Institute for Open and Transdisciplinary Research Initiatives, Osaka University

2024

2024.12

Characterization of fine-flavor cocoa in parent-hybrid combinations using metabolomics approach

Food Chem X. Volume 24, 30 December 2024, 101832

  • Enik Nurlaili Afifah1,2
  • Indah Anita Sari3
  • Agung Wahyu Susilo3
  • Abdul Malik3
  • Eiichiro Fukusaki1,4,5
  • Sastia Prama Putri1,4
詳細を表示
  • 1 Department of Biotechnology, Graduate School of Engineering, Osaka University
  • 2 Department of Agronomy, Faculty of Agriculture, Universitas Gadjah Mada
  • 3 Indonesian Coffee and Cocoa Research Institute
  • 4 Industrial Biotechnology Initiative Division, Institute for Open and Transdisciplinary Research Initiatives
  • 5 Osaka University Shimadzu Analytical Innovation Research Laboratories, International Center for Biotechnology, Osaka University, 2-1
2024.12

Imaging Lipidomics and Metallomics of Brown Rice Cultivars Used for Sake Production

Mass Spectrom (Tokyo). 2024;13(1):A0164

  • Eliza Farestiani1
  • Yoshihiro Tamada1,2
  • Koji Okuda3
  • Eiichiro Fukusaki1,4,5
  • Shuichi Shimma1,4,5
詳細を表示
  • 1 Department of Biotechnology, Graduate School of Engineering, Osaka University
  • 2 Hakutsuru Sake Brewing Co., Ltd.
  • 3 Solutions COE, Analytical and Measuring Instruments Division, Shimadzu Corporation
  • 4 Institute for Open and Transdisciplinary Research Initiatives, Osaka University
  • 5 Osaka University Shimadzu Analytical Innovation Research Laboratory, Osaka University
2024.12

Combination of Probe Electrospray Ionization Mass Spectrometry and Mass Spectrometry Imaging to Analyze Plant Alkaloids in Narcissus tazetta

Mass Spectrom (Tokyo). 2024;13(1):A0163

  • Kaoru Nakagawa1
  • Tetsuo Iida1
  • Manami Kobayashi1
  • Shuichi Shimma2,3
詳細を表示
  • 1 Solutions COE, Analytical & Measuring Instruments Division, Shimadzu Corporation.
  • 2 Department of Biotechnology, Graduate School of Engineering, Osaka University.
  • 3 Institute for Open and Transdisciplinary Research Initiatives, Osaka University.
2024.12

Effect of sodium metabisulfite treatment and storage condition on metabolic profile of young coconut (Cocos nucifera L.)

J Biosci Bioeng. 2024 Dec;138(6):515-521.

  • Kenichi Watanabe1
  • Della Rahmawati1,2
  • Mary Faith Yamballa Adan1
  • Muhammad Maulana Malikul Ikram1
  • Marvin Nathanael Iman1
  • Eiichiro Fukusaki1,3,4
  • Sastia Prama Putri1,3
詳細を表示
  • 1 Department of Biotechnology, Graduate School of Engineering, Osaka University
  • 2 Department of Food Technology, Faculty of Life Science and Technology, Swiss German University
  • 3 Industrial Biotechnology Division, Institute for Open and Transdisciplinary Research Initiatives, Osaka University
  • 4 Osaka University-Shimadzu Analytical Innovation Research Laboratories, Osaka University
2024.11

Data Processing of Product Ion Spectra: Methods to Control False Discovery Rate in Compound Search Results for Untargeted Metabolomics

詳細を表示
  • 1 Graduate School of Information Science and Technology, Osaka University.
  • 2 Osaka University Shimadzu Analytical Innovation Research Laboratories, Osaka University.
2024.11

Novel mimetic tissue standards for precise quantitative mass spectrometry imaging of drug and neurotransmitter concentrations in rat brain tissues

Anal Bioanal Chem. 2024 Nov;416(26):5579-5593.

  • Kenichi Watanabe1
  • Sayo Takayama1
  • Toichiro Yamada1
  • Masayo Hashimoto1
  • Jun Tadano2
  • Tetsuya Nakagawa2
  • Takao Watanabe3
  • Eiichiro Fukusaki4,5,6
  • Izuru Miyawaki1
  • Shuichi Shimma4,5,6
詳細を表示
  • 1 Preclinical Research Unit, Sumitomo Pharma Co., Ltd.
  • 2 Research Planning & Coordination, Sumitomo Pharma Co.
  • 3 Drug Research Division, Sumitomo Pharma Co.
  • 4 Department of Biotechnology, Graduate School of Engineering, Osaka University.
  • 5 Institute for Open and Transdisciplinary Research Initiatives, Osaka University.
  • 6 Osaka University Shimadzu Analytical Innovation Research Laboratory, Osaka University.
2024.11

Novel sampling and gas-phase derivatization strategy: Proof-of-concept by profiling ionic polar metabolites using gas chromatography-mass spectrometry

J Biosci Bioeng. 2024 Nov;138(5):462-468

  • Kazuhiro Kawamura1,2,3
  • iichiro Fukusaki1,3,4
詳細を表示
  • 1 Department of Biotechnology, Graduate School of Engineering, Osaka University
  • 2 Life Science Business Department, Shimadzu Corporation
  • 3 Osaka University Shimadzu Analytical Innovation Research Laboratory, Osaka University
  • 4 Institute for Open and Transdisciplinary Research Initiatives
2024.10

Mass spectrometry imaging of gamma-aminobutyric acid and glutamic acid decarboxylase reactions at various stages of banana ripening

J Biosci Bioeng. 2024 Oct 30:S1389-1723(24)00283-4.

  • Shiho Ishimoto1
  • Eiichiro Fukusaki1,2,3
  • Shuichi Shimma1,2,3
詳細を表示
  • 1 Department of Biotechnology, Graduate School of Engineering, Osaka University
  • 2 Osaka University Shimadzu Analytical Innovation Research Laboratory, Osaka University
  • 3 Institute for Open and Transdisciplinary Research Initiatives, Osaka University
2024.10

Multimass Analysis of Adeno-Associated Virus Vectors by Orbitrap-Based Charge Detection Mass Spectrometry

Analytical Chemistry 2024 96 (42), 17037-17046

  • Ryoji Nakatsuka1,2,3
  • Yuki Yamaguchi1
  • Kiichi Hirohata1
  • Saki Shimojo1
  • Makoto Murakami1
  • Mark Allen Vergara Rocafort1
  • Yasuo Tsunaka1
  • Mitsuko Fukuhara1,4
  • Tetsuo Torisu1
  • Susumu Uchiyama1
詳細を表示
  • 1 Department of Biotechnology, Graduate School of Engineering, Osaka University, 2-1 Yamadaoka, Suita, Osaka 565-0871, Japan
  • 2 Technology Research Laboratory, Shimadzu Corporation, 1 Nishinokyo-Kuwabaracho, Nakagyo-ku, Kyoto 604-8511, Japan
  • 3 Osaka University Shimadzu Analytical Innovation Research Laboratories, Osaka University, 2-1 Yamadaoka, Suita, Osaka 565-0871, Japan
  • 4 U-Medico Inc., 2-1 Yamadaoka, Suita, Osaka 565-0871, Japan
2024.09

Towards more realistic cultivated meat by rethinking bioengineering approaches

Trends in Biotechnology

  • Marie Piantino1
  • Quentin Muller1
  • Chika Nakadozono1,2,3,4
  • Asuka Yamada1,2,5
  • Michiya Matsusaki1,2
詳細を表示
  • 1 Consortium for Future Innovation by Cultured Meat, Osaka, Japan
  • 2 Department of Applied Chemistry, Graduate School of Engineering, Osaka University, Osaka, Japan
  • 3 Shimadzu Analytical Innovation Research Laboratories, Osaka University, Osaka, Japan
  • 4 Shimadzu Corporation, Kyoto, Japan
  • 5 Toppan Holdings Inc., Business Development Division, Technical Research Institute, Saitama, Japan
2024.08

Novel mimetic tissue standards for precise quantitative mass spectrometry imaging of drug and neurotransmitter concentrations in rat brain tissues

Anal Bioanal Chem.

  • Kenichi Watanabe1
  • Sayo Takayama1
  • Toichiro Yamada1
  • Masayo Hashimoto1
  • Jun Tadano2
  • Tetsuya Nakagawa2
  • Takao Watanabe3
  • Eiichiro Fukusaki4,5,6
  • Izuru Miyawaki1
  • Shuichi Shimma4,5,6
詳細を表示
  • 1 Preclinical Research Unit, Sumitomo Pharma Co., Ltd
  • 2 Research Planning & Coordination, Sumitomo Pharma Co., Ltd
  • 3 Drug Research Division, Sumitomo Pharma Co., Ltd
  • 4 Department of Biotechnology, Graduate School of Engineering, Osaka University
  • 5 Institute for Open and Transdisciplinary Research Initiatives, Osaka University
  • 6 Osaka University Shimadzu Omics Innovation Research Laboratory, Osaka University.
2024.Sum.

REACH Project : For Strategic Development of Highly Skilled Human Resources through Academia-Industry Collaboration

詳細を表示
  • Osaka University Shimadzu Omics Innovation Research Laboratory, Osaka University
2024.07

New insights into the characteristic flavor components of traditional sour beers such as Lambic and Flanders Red Ale beers

J Biosci Bioeng . 2024 Jul;138(1):54-62

  • Kyoya Onishi1
  • Masahiro Furuno1
  • Asuka Mori1
  • Eiichiro Fukusaki1,2,3
詳細を表示
  • 1 Department of Biotechnology, Graduate School of Engineering, Osaka University
  • 2 Industrial Biotechnology Initiative Division, Institute for Open and Transdisciplinary Research Initiative, Osaka University
  • 3 Osaka University Shimadzu Omics Innovation Research Laboratories, Osaka University
2024.07

Characteristics of kopyor coconut (Cocos nucifera L.) using sensory analysis and metabolomics-based approach

J Biosci Bioeng. 2024 Jul;138(1):44-53

  • Mercy Bientri Yunindanova1,2
  • Sastia Prama Putri1,3
  • Hengky Novarianto5
  • Eiichiro Fukusaki1,3,4
詳細を表示
  • 1 Department of Biotechnology, Graduate School of Engineering, Osaka University
  • 2 Study Program of Agrotechnology, Faculty of Agriculture, Universitas Sebelas Maret
  • 3 Industrial Biotechnology Initiative Division, Institute for Open and Transdisciplinary Research Initiatives
  • 4 Osaka University Shimadzu Omics Innovation Research Laboratories, International Center for Biotechnology
  • 5 National Research and Innovation Agency (BRIN)
2024.07

Multidisciplinary approach combining food metabolomics and epidemiology identifies meglutol as an important bioactive metabolite in tempe, an Indonesian fermented food

Food Chem . 2024 Jul 15:446:138744

  • Marvin N. Imana
  • Danielle E. Haslamb d
  • Liming Liange f
  • Kai Guog
  • Kaumudi Joshipurae g
  • Cynthia M. Pérezh
  • Clary Clishi
  • Katherine L. Tuckerj
  • JoAnn E. Mansonc
  • Shilpa N. Bhupathirajub d
  • Eiichiro Fukusakia k l
  • Jessica Lasky-Sub
  • Sastia P. Putria l
詳細を表示
  • a Department of Biotechnology, Graduate School of Engineering,
  • b Channing Division of Network Medicine, Department of Medicine, Brigham and Women's Hospital and Harvard Medical School
  • c Division of Preventive Medicine, Department of Medicine, Brigham and Women’s Hospital and Harvard Medical School
  • d Department of Nutrition, Harvard T.H. Chan School of Public Health,
  • e Department of Epidemiology, Harvard T.H. Chan School of Public Health
  • f Department of Biostatistics, Harvard T.H. Chan School of Public Health
  • g Center for Clinical Research and Health Promotion, Graduate School of Public Health, University of Puerto Rico Medical Sciences Campus
  • h Department of Biostatistics and Epidemiology, Graduate School of Public Health, University of Puerto Rico Medical Sciences Campus
  • i Broad Institute of Massachusetts Institute of Technology and Harvard,
  • j Department of Biomedical and Nutritional Sciences, University of Massachusetts Lowell
  • k Industrial Biotechnology Initiative Division, Institute for Open and Transdisciplinary Research Initiatives, Osaka University
  • l Osaka University-Shimadzu Omics Innovation Research Laboratories, Osaka University
2024.06

Metabolomic characterization of monoclonal antibody-producing Chinese hamster lung (CHL)-YN cells in glucose-controlled serum-free fed-batch operation

Biotechnology and Bioengineering

  • Puriwat Sukwattananipaat1
  • Hirotaka Kuroda1,2,3
  • Noriko Yamano-Adachi1,4,5
  • Takeshi Omasa1,4,5
詳細を表示
  • 1 Graduate School of Engineering, Osaka University
  • 2 Shimadzu Corp.
  • 3 Shimadzu Analytical Innovation Research Laboratories
  • 4 Institute for Open and Transdisciplinary Research Initiatives, Osaka University
  • 5 Manufacturing Technology Association of Biologics (MAB)
2024.05

13C-metabolic flux analysis reveals metabolic rewiring in HL-60 neutrophil-like cells through differentiation and immune stimulation

Metab Eng Commun . 2024 May 27:18:e00239

  • Takeo Taniguchi1
  • Nobuyuki Okahashi1,2,3
  • Fumio Matsuda1,2,3
詳細を表示
  • 1 Department of Bioinformatic Engineering, Graduate School of Information Science and Technology, Osaka University
  • 2 Department of Biotechnology, Osaka University Shimadzu Analytical Innovation Research Laboratory, Graduate School of Engineering, Osaka University.
  • 3 Industrial Biotechnology Initiative Division, Institute for Open and Transdisciplinary Research Initiatives, Osaka University
2024.04

New insights into the characteristic flavor components of traditional sour beers such as Lambic and Flanders Red Ale beers

J Biosci Bioeng. 2024 Apr 22:S1389-1723(24)00111-7

  • Kyoya Onishi1
  • Masahiro Furuno1
  • Asuka Mori1
  • Eiichiro Fukusaki1,2,3
詳細を表示
  • 1 Department of Biotechnology, Graduate School of Engineering, Osaka University
  • 2 Industrial Biotechnology Initiative Division, Institute for Open and Transdisciplinary Research Initiative, Osaka University
  • 3 Osaka University Shimadzu Omics Innovation Research Laboratories, Osaka University,
2024.04

Identification and enzymatic properties of arginine decarboxylase from Aspergillus oryzae

Appl Environ Microbiol. 2024 Apr 16:e0029424

  • Yui Murakami1
  • Soichiro Ikuta2
  • Wakao Fukuda2
  • Naoki Akasaka1,3
  • Jun-Ichi Maruyama4,5
  • Shuichi Shinma6,7,8
  • Eiichiro Fukusaki6,7,8
  • Shinsuke Fujiwara1,2
詳細を表示
  • 1 Department of Biosciences, Graduate School of Science and Technology, Kwansei-Gakuin University
  • 2 Department of Biosciences, School of Biological and Environmental Sciences
  • 3 Laboratory for Circular Bioeconomy Development, Office of Society-Academia Collaboration for Innovation, Kyoto University
  • 4 Department of Biotechnology, The University of Tokyo
  • 5 Collaborative Research Institute for Innovative Microbiology, The University of Tokyo
  • 6 Department of Biotechnology, Graduate School of Engineering, Osaka University
  • 7 Osaka University Shimadzu Analytical Innovation Laboratory, Osaka University
  • 8 Institute for Open and Transdisciplinary Research Initiatives (OTRI), Osaka University.
2024.03

Development of a Mass Spectrometry Imaging Method to Evaluate the Penetration of Moisturizing Components Coated on Surgical Gloves into Artificial Membranes

Mass Spectrom (Tokyo) . 2024;13(1):A0145

  • Erika Nagano1
  • Kazuki Odake1
  • Toru Akiyoshi2
  • Shuichi Shimma 1,3,4,5
詳細を表示
  • 1 Research and Development Department, Miruion Corporation
  • 2 Marketing Department, Cardinal Health K.K.
  • 3 Department of Biotechnology, Graduate School of Engineering, Osaka University
  • 4 Institute for Open and Transdisciplinary Research Initiatives, Osaka University
  • 5 Osaka University Shimadzu Omics Innovation Research Laboratory, Osaka University
2024.03

Metabolome analysis of metabolic burden in Escherichia coli caused by overexpression of green fluorescent protein and delta-rhodopsin

J Biosci Bioeng. 2024 Mar;137(3):187-194.

  • Chinatsu Matsuyama1
  • Taisuke Seike1
  • Nobuyuki Okahashi1,2
  • Teppei Niide1
  • Kiyotaka Y. Hara3
  • Yoko Hirono-Hara4
  • Jun Ishii5
  • Hiroshi Shimizu1
  • Yoshihiro Toya1
  • Fumio Matsuda1,2
詳細を表示
  • 1 Graduate School of Information Science and Technology, Osaka University
  • 2 Osaka University Shimadzu Omics Innovation Research Laboratories, Osaka University
  • 3 Department of Environmental and Life Sciences, School of Food and Nutritional Sciences, University of Shizuoka
  • 4 396Bio Inc.
  • 5 Engineering Biology Research Center, Kobe University
2024.03

Rice grain structural characteristics of sake rice cultivar Hakutsurunishiki for daiginjo-shu brewing

Biosci Biotechnol Biochem. 2024 Mar 22;88(4):445-452

  • Yoshihiro Tamada1,2
  • Takuya Asai1
  • Takafumi Kubodera1
  • Takahiro Akashi1
  • Eiichiro Fukusaki2,3,4
  • Shuichi Shimma2,3,4
詳細を表示
  • 1 Hakutsuru Sake Brewing Co., Ltd.
  • 2 Department of Biotechnology, Graduate School of Engineering, Osaka University
  • 3 Osaka University Shimadzu Omics Innovation Research Laboratory, Osaka University
  • 4 Institute for Open and Transdisciplinary Research Initiatives, Osaka University
2024.02

Multidisciplinary approach combining food metabolomics and epidemiology identifies meglutol as an important bioactive metabolite in tempe, an Indonesian fermented food

Food Chem. 2024 Feb 16:446:138744.

  • Marvin N. Imana 1
  • Danielle E. Haslamb d 1
  • Liming Liange f
  • Kai Guog
  • Kaumudi Joshipurae g
  • Cynthia M. Pérezh
  • Clary Clishi
  • Katherine L. Tuckerj
  • JoAnn E. Mansonc
  • Shilpa N. Bhupathirajub d 2
  • Eiichiro Fukusakia k l 2
  • Jessica Lasky-Sub 2
  • Sastia P. Putria l 2
詳細を表示
  • a Department of Biotechnology, Graduate School of Engineering, Osaka University,
  • b Channing Division of Network Medicine, Department of Medicine, Brigham and Women's Hospital and Harvard Medical School
  • c Division of Preventive Medicine, Department of Medicine, Brigham and Women’s Hospital and Harvard Medical School
  • d Department of Nutrition, Harvard T.H. Chan School of Public Health
  • e Department of Epidemiology, Harvard T.H. Chan School of Public Health
  • f Department of Biostatistics, Harvard T.H. Chan School of Public Health,
  • g Center for Clinical Research and Health Promotion, Graduate School of Public Health, University of Puerto Rico Medical Sciences Campus
  • h Department of Biostatistics and Epidemiology, Graduate School of Public Health, University of Puerto Rico Medical Sciences Campus
  • i Broad Institute of Massachusetts Institute of Technology and Harvard
  • j Department of Biomedical and Nutritional Sciences, University of Massachusetts Lowell
  • k Industrial Biotechnology Initiative Division, Institute for Open and Transdisciplinary Research Initiatives, Osaka University
  • l Osaka University-Shimadzu Omics Innovation Research Laboratories, Osaka University
  • 1 These authors contributed equally: Marvin N. Iman, Danielle E. Haslam.
  • 2 Joint senior authors, contributed equally: Shilpa N. Bhupathiraju, Eiichiro Fukusaki, Jessica Lasky-Su, Sastia P. Putri.
2024.01

A Bayesian approach for constituent estimation in nucleic acid mixture models

Front. Anal. Sci., 08 Jan 2024, 10.3389/frans.2023.1301602

  • Taichi Tomono1,2,3
  • Satoshi Hara1
  • Yusuke Nakai2
  • Kazuma Takahara2
  • Junko Iida3,4
  • Takashi Washio1
詳細を表示
  • 1 Department of Reasoning for Intelligence, The Institute of Scientific and Industrial Research, Osaka University, Ōsaka, Japan
  • 2 AI Solution Unit, Technology Research Laboratory, Shimadzu Corporation, Kyoto, Japan
  • 3 Shimadzu Analytical Innovation Research Laboratories, Osaka University, Ōsaka, Japan
  • 4 Life Science Business Department, Analytical and Measuring Instruments Division, Shimadzu Corporation, Kyoto, Japan

2023

2023.11

Applicability of supercritical fluid chromatography for oligonucleotide analysis: A proof-of-concept study

J Chromatogr A 1708(2023) 464333.

  • Momoka Hayashida1,2,3
  • Risa Suzuki3
  • Shinnosuke Horie2,3,4
  • Junichi Masuda3
  • Takao Yamaguchi1
  • Satoshi Obika1
詳細を表示
  • 1 Graduate School of Pharmaceutical Sciences, Osaka University
  • 2 Shimadzu Analytical Innovation Research Laboratories
  • 3 Shimadzu Corporation
  • 4 Shimadzu Europa GmbH
2023.10

Lipidome and metabolome analyses reveal metabolic alterations associated with MCF-7 apoptosis upon 4-hydroxytamoxifen treatment

Sci. Rep. (2023) 13:18549

  • Kazuki Nishimoto1
  • Nobuyuki Okahashi1,2,3
  • Masaharu Maruyama1
  • Yoshihiro Izumi4
  • Kohta Nakatani4
  • Yuki Ito2,5
  • Junko Iida2,5
  • Takeshi Bamba4
  • Fumio Matsuda1,2,3
詳細を表示
  • 1 Department of Bioinformatic Engineering, Graduate School of Information Science and Technology, Osaka University
  • 2 Department of Biotechnology, Osaka University Shimadzu Analytical Innovation Research Laboratory, Graduate School of Engineering, Osaka University
  • 3 Industrial Biotechnology Initiative Division, Institute for Open and Transdisciplinary Research Initiatives, Osaka University
  • 4 Division of Metabolomics, Medical Research Center for High Depth Omics, Medical Institute of Bioregulation, Kyushu University
  • 5 Analytical and Measuring Instruments Division, Shimadzu Corporation
2023.02

Lipidome variation of industrial Saccharomyces cerevisiae strains analyzed by LC-QTOF/MS-based untargeted lipidomics

J Biosci Bioeng, 135(2) 102-108

  • Shuka Komori1
  • Nobuyuki Okahashi1 2 3
  • Junko Iida2 4
  • Fumio Matsuda1 2 3
詳細を表示
  • 1 Department of Bioinformatic Engineering, Graduate School of Information Science and Technology, Osaka University
  • 2 Osaka University Shimadzu Analytical Innovation Research Laboratory, Graduate School of Engineering, Osaka University
  • 3 Industrial Biotechnology Initiative Division, Institute for Open and Transdisciplinary Research Initiatives, Osaka University
  • 4 Analytical and Measuring Instruments Division, Shimadzu Corporation

2022

2022.07

Isotope Calculation Gadgets: A Series of Software for Isotope-Tracing Experiments in Garuda Platform

Metabolites 2022, 12(7), 646

  • Nobuyuki Okahashi1 2 3
  • Yuki Yamada1
  • Junko Iida2 4
  • Fumio Matsuda1 2 3
詳細を表示
  • 1 Department of Bioinformatic Engineering, Graduate School of Information Science and Technology, Osaka University
  • 2 Department of Biotechnology, Osaka University Shimadzu Analytical Innovation Research Laboratory, Graduate School of Engineering, Osaka University
  • 3 Industrial Biotechnology Initiative Division, Institute for Open and Transdisciplinary Research Initiatives, Osaka University
  • 4 Analytical and Measuring Instruments Division, Shimadzu Corporation
2022.01

Automated Recommendation of Research Keywords from PubMed That Suggest the Molecular Mechanism Associated with Biomarker Metabolites

Metabolites

  • Shinji Kanazawa 1,2,3
  • Satoshi Shimizu 1
  • Shigeki Kajihara 1
  • Norio Mukai 1
  • Junko Iida 1,2
  • Fumio Matsuda 3,4
詳細を表示
  • 1 Shimadzu Corporation
  • 2 Osaka University Shimadzu Omics Innovation Research Laboratories, Osaka University
  • 3 Graduate School of Information Science and Technology, Osaka University
  • 4 Institute for Open and Transdisciplinary Research Initiatives, Osaka University

2021

2021.05

Evaluation of change in metabolome caused by comprehensive diabetes treatment: A prospective observational study of diabetes inpatients with gas chromatography/mass spectrometry-based non-target metabolomic analysis

journal of diabetes investigation

  • Naohiro Taya 1
  • Naoto Katakami 1,2
  • Kazuo Omori 1
  • Shoya Arakawa 3
  • Shigero Hosoe 1
  • Hirotaka Watanabe 1
  • Mitsuyoshi Takahara 1,4
  • Kazuyuki Miyashita 1
  • Hitoshi Nishizawa 1
  • Taka-Aki Matsuoka 1
  • Masahiro Furuno 3
  • Takeshi Bamba 5
  • Junko Iida 6,7
  • Eiichiro Fukusaki 3
  • Iichiro Shimomura 1
詳細を表示
  • 1 Department of Metabolic Medicine, Osaka University Graduate School of Medicine
  • 2 Department of Metabolism and Atherosclerosis, Osaka University Graduate School of Medicine
  • 3 Laboratory of Bioresource Engineering, Department of Biotechnology, Graduate School of Engineering, Osaka University
  • 4 Department of Diabetes Care Medicine, Graduate School of Medicine, Osaka University
  • 5 Division of Metabolomics, Research Center for Transomics Medicine, Medical Institute of Bioregulation, Kyushu University
  • 6 Shimadzu Corporation
  • 7 Osaka University Shimadzu Omics Innovation Research Laboratories, Graduate School of Engineering, Osaka University
2021.02

Fake metabolomics chromatogram generation for facilitating deep learning of peak-picking neural networks

Journal of Bioscience and Bioengineering

  • Shinji Kanazawa 1,2,3
  • Akira Noda 1
  • Arisa Ito 2
  • Kyoko Hashimoto 2
  • Akihiro Kunisawa 1
  • Tsuyoshi Nakanishi 1
  • Shigeki Kajihara 1
  • Norio Mukai 1
  • Junko Iida 1,2
  • Eiichiro Fukusaki 4
  • Fumio Matsuda 3
詳細を表示
  • 1 Shimadzu Corporation
  • 2 Osaka University Shimadzu Omics Innovation Research Laboratories, Osaka University
  • 3 Graduate School of Information Science and Technology, Osaka University
  • 4 Graduate School of Engineering, Osaka University

2019

2019.08

Fragmentation of Dicarboxylic and Tricarboxylic Acids in the Krebs Cycle Using GC-EI-MS and GC-EI-MS/MS

Mass Spectrometry

  • Nobuyuki Okahashi 1
  • Shuichi Kawana 2
  • Junko Iida 2,3
  • Hiroshi Shimizu 1
  • Fumio Matsuda 1
詳細を表示
  • 1 Graduate School of Information Science and Technology, Osaka University
  • 2 Shimadzu Corporation
  • 3 Osaka University Shimadzu Analytical Innovation Research Laboratory, Osaka University

2018

2018.12

Free D-amino acids produced by commensal bacteria in the colonic lumen

Scientific Reports (2018), DOI:10.1038/s41598-018-36244-z

  • Mitsuharu Matsumoto 1
  • Akihiro Kunisawa 2,3
  • Takanari Hattori 2,3
  • Shuichi Kawana 2
  • Yusuke Kitada 1
  • Hazuki Tamada 1
  • Shinichi Kawano 2,3
  • Yoshihiro Hayakawa 2
  • Junko Iida 2,3
  • Eiichiro Fukusaki 3,4
詳細を表示
  • 1 Dairy Science and Technology Institute, Kyodo Milk Industry Co. Ltd
  • 2 Shimadzu Corporation
  • 3 Osaka University Shimadzu Analytical Innovation Research Laboratory, Osaka University
  • 4 Graduate School of Information Science and Technology, Osaka University
2018.09

Sugar phosphate analysis with baseline separation and soft ionization by gas chromatography-negative chemical ionization-mass spectrometry improves flux estimation of bidirectional reactions in cancer cells

Metabolic Engineering (2018)

  • Nobuyuki Okahashi 1
  • Kousuke Maeda 1
  • Shuichi Kawana 2
  • Junko Iida 2,3
  • Hiroshi Shimizu 1
  • Fumio Matsuda 1
詳細を表示
  • 1 Graduate School of Information Science and Technology, Osaka University
  • 2 Shimadzu Corporation
  • 3 Osaka University Shimadzu Analytical Innovation Research Laboratory, Osaka University
2018.08

FK960 binding proteins, quinone oxidoreductase2 and pyridoxal kinase were identified by LC-MS/MS for drug discovery of Alzheimer's treatment

Trends in Research (2018), DOI:10.15761/TR.1000113

  • Zenzaburo Tozuka 1,2,3
  • Akihiro Kunisawa 2
  • Fumiyuki Shirai 3,4
  • Yoshinori Ishii 3,4
詳細を表示
  • 1 Graduate School of Pharmaceutical Science, Osaka University
  • 2 Osaka University Shimadzu Analytical Innovation Research Laboratory, Osaka University
  • 3 Fujisawa Pharmaceutical Co., Ltd.
  • 4 Astellas Pharma Inc.
2018.07

Multi omics by LC-MS/MS to search small molecule ligands of nuclear receptors to control transcription of pharmaceutical active proteins for drug discovery

Trends in Research (2018), DOI: 10.15761/TR.1000111

  • Zenzaburo Tozuka, Akihiro Kunisawa
詳細を表示
  • Osaka University Shimadzu Analytical Innovation Research Laboratory, Osaka University

2016

2016.06

GC-MS/MS survey of collision-induced dissociation of tert-butyldimethylsilyl-derivatized amino acids and its application to 13C-metabolic flux analysis of Escherichia coli central metabolism

Analytical and Bioanalytical Chemistry, June, 2016, in press.

  • Nobuyuki Okahashi 1
  • Shuichi Kawana 2
  • Junko Iida 2,3
  • Hiroshi Shimizu 1
  • Fumio Matsuda 1
詳細を表示
  • 1 Graduate School of Information Science and Technology, Osaka University
  • 2 Shimadzu Co.
  • 3 Graduate School of Engineering, Osaka University
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