Tomoyoshi Soga

Summary

Affiliation: Keio University
Country: Japan

Publications

  1. pmc Mitochondrial dysfunction associated with increased oxidative stress and α-synuclein accumulation in PARK2 iPSC-derived neurons and postmortem brain tissue
    Yoichi Imaizumi
    Department of Physiology, Keio University School of Medicine, 35 Shinanomachi, Tokyo 160 8582, Japan
    Mol Brain 5:35. 2012
  2. doi request reprint Cancer metabolism: key players in metabolic reprogramming
    Tomoyoshi Soga
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Japan
    Cancer Sci 104:275-81. 2013
  3. ncbi request reprint Differential metabolomics reveals ophthalmic acid as an oxidative stress biomarker indicating hepatic glutathione consumption
    Tomoyoshi Soga
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997 0017, Japan
    J Biol Chem 281:16768-76. 2006
  4. ncbi request reprint Analysis of nucleotides by pressure-assisted capillary electrophoresis-mass spectrometry using silanol mask technique
    Tomoyoshi Soga
    Institute for Advanced Biosciences, Keio University, Kakuganji, Tsuruoka, Yamagata 997 0052, Japan
    J Chromatogr A 1159:125-33. 2007
  5. doi request reprint Metabolomic profiling of anionic metabolites by capillary electrophoresis mass spectrometry
    Tomoyoshi Soga
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997 0052, Japan
    Anal Chem 81:6165-74. 2009
  6. ncbi request reprint Capillary electrophoresis method for the analysis of inorganic anions, organic acids, amino acids, nucleotides, carbohydrates and other anionic compounds
    T Soga
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata, Japan
    Electrophoresis 22:3418-25. 2001
  7. ncbi request reprint Qualitative and quantitative analysis of amino acids by capillary electrophoresis-electrospray ionization-tandem mass spectrometry
    Tomoyoshi Soga
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata, Japan
    Electrophoresis 25:1964-72. 2004
  8. ncbi request reprint Quantitative metabolome analysis using capillary electrophoresis mass spectrometry
    Tomoyoshi Soga
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997 0017, Japan
    J Proteome Res 2:488-94. 2003
  9. ncbi request reprint Pressure-assisted capillary electrophoresis electrospray ionization mass spectrometry for analysis of multivalent anions
    Tomoyoshi Soga
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997 0017, Japan
    Anal Chem 74:6224-9. 2002
  10. ncbi request reprint Simultaneous determination of anionic intermediates for Bacillus subtilis metabolic pathways by capillary electrophoresis electrospray ionization mass spectrometry
    Tomoyoshi Soga
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata, Japan
    Anal Chem 74:2233-9. 2002

Detail Information

Publications67

  1. pmc Mitochondrial dysfunction associated with increased oxidative stress and α-synuclein accumulation in PARK2 iPSC-derived neurons and postmortem brain tissue
    Yoichi Imaizumi
    Department of Physiology, Keio University School of Medicine, 35 Shinanomachi, Tokyo 160 8582, Japan
    Mol Brain 5:35. 2012
    ..The familial form of PD, PARK2, is caused by mutations in the parkin gene. parkin-knockout mouse models show some abnormalities, but they do not fully recapitulate the pathophysiology of human PARK2...
  2. doi request reprint Cancer metabolism: key players in metabolic reprogramming
    Tomoyoshi Soga
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Japan
    Cancer Sci 104:275-81. 2013
    ..This paper reviews recent findings related to key transcription factors and enzymes that play an important role in the regulation of cancer metabolism...
  3. ncbi request reprint Differential metabolomics reveals ophthalmic acid as an oxidative stress biomarker indicating hepatic glutathione consumption
    Tomoyoshi Soga
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997 0017, Japan
    J Biol Chem 281:16768-76. 2006
    ..Our method can thus pinpoint specific metabolite changes and provide insights into the perturbation of metabolic pathways on a large scale and serve as a powerful new tool for discovering low molecular weight biomarkers...
  4. ncbi request reprint Analysis of nucleotides by pressure-assisted capillary electrophoresis-mass spectrometry using silanol mask technique
    Tomoyoshi Soga
    Institute for Advanced Biosciences, Keio University, Kakuganji, Tsuruoka, Yamagata 997 0052, Japan
    J Chromatogr A 1159:125-33. 2007
    ..The methodology was used to suggest that pfkA is the main functional enzyme...
  5. doi request reprint Metabolomic profiling of anionic metabolites by capillary electrophoresis mass spectrometry
    Tomoyoshi Soga
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997 0052, Japan
    Anal Chem 81:6165-74. 2009
    ..8 and 24 fmol) at a signal-to-noise ratio of 3. This method is quantitative, sensitive, and robust, and its utility was demonstrated by the analysis of the metabolites in the central metabolic pathways extracted from mouse liver...
  6. ncbi request reprint Capillary electrophoresis method for the analysis of inorganic anions, organic acids, amino acids, nucleotides, carbohydrates and other anionic compounds
    T Soga
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata, Japan
    Electrophoresis 22:3418-25. 2001
    ..This method is simple and universal for anion analysis, and could be readily applied to the simultaneous determination of anionic compounds. In this work, it was used to identify and quantify important anions in sea urchin and sake...
  7. ncbi request reprint Qualitative and quantitative analysis of amino acids by capillary electrophoresis-electrospray ionization-tandem mass spectrometry
    Tomoyoshi Soga
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata, Japan
    Electrophoresis 25:1964-72. 2004
    ..The power of the method was demonstrated by analyzing amino acids in human urine...
  8. ncbi request reprint Quantitative metabolome analysis using capillary electrophoresis mass spectrometry
    Tomoyoshi Soga
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997 0017, Japan
    J Proteome Res 2:488-94. 2003
    ..subtilis sporulation...
  9. ncbi request reprint Pressure-assisted capillary electrophoresis electrospray ionization mass spectrometry for analysis of multivalent anions
    Tomoyoshi Soga
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997 0017, Japan
    Anal Chem 74:6224-9. 2002
    ..The utility of the method was demonstrated by analysis of citrate isomers, nucleotides, dinucleotides, and CoA compounds extracted from Bacillus subtilis cells...
  10. ncbi request reprint Simultaneous determination of anionic intermediates for Bacillus subtilis metabolic pathways by capillary electrophoresis electrospray ionization mass spectrometry
    Tomoyoshi Soga
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata, Japan
    Anal Chem 74:2233-9. 2002
    ..This method was applied to the comprehensive analysis of metabolic intermediates extracted from Bacillus subtilis, and 27 anionic metabolites could be directly detected and quantified...
  11. doi request reprint Serum metabolomics reveals γ-glutamyl dipeptides as biomarkers for discrimination among different forms of liver disease
    Tomoyoshi Soga
    Institute for Advanced Biosciences, Keio University, Tsuruoka 997 0052, Japan
    J Hepatol 55:896-905. 2011
    ..We applied a metabolome profiling approach to serum samples obtained from patients with different liver diseases, to discover noninvasive and reliable biomarkers for rapid-screening diagnosis of liver diseases...
  12. pmc Systematic phenome analysis of Escherichia coli multiple-knockout mutants reveals hidden reactions in central carbon metabolism
    Kenji Nakahigashi
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997 0017, Japan
    Mol Syst Biol 5:306. 2009
    ..The emergence of an alternative pathway not requiring any changes in gene expression, but rather relying on the accumulation of an intermediate metabolite may be a novel mechanism mediating the robustness of these metabolic networks...
  13. pmc Dynamic simulation and metabolome analysis of long-term erythrocyte storage in adenine-guanosine solution
    Taiko Nishino
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata, Japan Systems Biology Program, Graduate School of Media and Governance, Keio University, Fujisawa, Kanagawa, Japan
    PLoS ONE 8:e71060. 2013
    ....
  14. pmc Time-resolved metabolomics reveals metabolic modulation in rice foliage
    Shigeru Sato
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Japan
    BMC Syst Biol 2:51. 2008
    ..However, the results were unsatisfactory and effective data-mining techniques that apply appropriate comprehensive datasets are needed...
  15. ncbi request reprint P-BOSS: a new filtering method for treasure hunting in metabolomics
    Mineo Morohashi
    Human Metabolome Technologies, Inc, Yamagata 997 0052, Japan
    J Chromatogr A 1159:142-8. 2007
    ..As the result, P-BOSS showed remarkably superior performance, reducing 65% of all peaks, while leaving significant peaks...
  16. ncbi request reprint Multiple high-throughput analyses monitor the response of E. coli to perturbations
    Nobuyoshi Ishii
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997 0017, Japan
    Science 316:593-7. 2007
    ..coli actively regulated enzyme levels to maintain a stable metabolic state in response to changes in growth rate. E. coli thus seems to use complementary strategies that result in a metabolic network robust against perturbations...
  17. ncbi request reprint Direct measurement of isotopomer of intracellular metabolites using capillary electrophoresis time-of-flight mass spectrometry for efficient metabolic flux analysis
    Yoshihiro Toya
    Institute for Advanced Biosciences, Keio University, 403 1 Nipponkoku, Daihoji, Tsuruoka, Yamagata 997 0017, Japan
    J Chromatogr A 1159:134-41. 2007
    ..However, our CE-TOFMS method facilitates high-throughput flux analysis without requiring complicated sample preparation such as hydrolysis of proteins and derivatization of amino acids...
  18. doi request reprint Disruption of HIF-1α in hepatocytes impairs glucose metabolism in diet-induced obesity mice
    Daigo Ochiai
    Department of Obstetrics and Gynecology, School of Medicine, Keio University, Japan
    Biochem Biophys Res Commun 415:445-9. 2011
    ..These findings suggest that HIF-1 in hepatocytes plays protective roles against the progression of diabetes mellitus...
  19. doi request reprint Depiction of metabolome changes in histidine-starved Escherichia coli by CE-TOFMS
    Yoshiaki Ohashi
    Human Metabolome Technologies, Inc, Tsuruoka, Yamagata 997 0052, Japan
    Mol Biosyst 4:135-47. 2008
    ..Simultaneously, disciplined responses were observed in the glycolysis, tricarboxylic acid cycle, and amino acid and nucleotide biosynthesis pathways as regulated by amino acid starvation...
  20. ncbi request reprint Prediction of liquid chromatographic retention times of peptides generated by protease digestion of the Escherichia coli proteome using artificial neural networks
    Kosaku Shinoda
    Human Metabolome Technologies, Inc, Tsuruoka, Yamagata 997 0052, Japan
    J Proteome Res 5:3312-7. 2006
    ..Our approach is useful for the proteome-wide characterization of peptides and the identification of unknown peptide peaks obtained in proteome analysis...
  21. doi request reprint In silico modeling and metabolome analysis of long-stored erythrocytes to improve blood storage methods
    Taiko Nishino
    Institute for Advanced Biosciences, Keio University, 403 1, Daihoji, Tsuruoka, Yamagata 997 0017, Japan
    J Biotechnol 144:212-23. 2009
    ..Alterations in the metabolic intermediate concentrations after long storage were qualitatively predicted by the model. Finally, through further systematic analysis, we also discuss the usability of our model...
  22. ncbi request reprint Metabolomics approach for enzyme discovery
    Natsumi Saito
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata, 997 0017 Japan
    J Proteome Res 5:1979-87. 2006
    ..Our approach should be broadly applicable and useful for enzyme discovery in any system...
  23. doi request reprint 13C-metabolic flux analysis for batch culture of Escherichia coli and its Pyk and Pgi gene knockout mutants based on mass isotopomer distribution of intracellular metabolites
    Yoshihiro Toya
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Japan
    Biotechnol Prog 26:975-92. 2010
    ..Furthermore, ATP production was the primary objective function in the Pgi mutant. This study demonstrates how cells adjust their metabolism in response to environmental changes and/or genetic perturbations in the batch cultivation...
  24. doi request reprint Changes in the charged metabolite and sugar profiles of pasteurized and unpasteurized Japanese sake with storage
    Masahiro Sugimoto
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata, Japan
    J Agric Food Chem 60:2586-93. 2012
    ..Rather than stabilizing the sake metabolite profile during storage, pasteurization results in characteristic changes compared to unpasteurized sake...
  25. pmc MathDAMP: a package for differential analysis of metabolite profiles
    Richard Baran
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997 0017, Japan
    BMC Bioinformatics 7:530. 2006
    ..The task remains difficult, given the datasets' size, complexity, and common shifts in migration (elution/retention) times between samples analyzed by hyphenated mass spectrometry methods...
  26. ncbi request reprint Metabolomic profiles and sensory attributes of edamame under various storage duration and temperature conditions
    Masahiro Sugimoto
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata, Japan
    J Agric Food Chem 58:8418-25. 2010
    ..In particular, changes in amino acid levels were related to sensory attributes. The downstream metabolites of shikimate as well as phospholipids and gamma-aminobutyric acid increased with increasing storage temperatures...
  27. pmc Visualization of three-way comparisons of omics data
    Richard Baran
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997 0017, Japan
    BMC Bioinformatics 8:72. 2007
    ..However, the current color-codings limit the visualizations to single datasets or pairwise comparisons...
  28. doi request reprint GTP-dependent RNA 3'-terminal phosphate cyclase from the hyperthermophilic archaeon Pyrococcus furiosus
    Asako Sato
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Japan
    Genes Cells 16:1190-9. 2011
    ..furiosus). The possible roles of Pf-Rtc and the importance of terminal phosphate structures in RNA are discussed...
  29. ncbi request reprint Unveiling cellular biochemical reactions via metabolomics-driven approaches
    Natsumi Saito
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997 0017, Japan
    Curr Opin Microbiol 13:358-62. 2010
    ....
  30. ncbi request reprint Prediction of metabolite identity from accurate mass, migration time prediction and isotopic pattern information in CE-TOFMS data
    Masahiro Sugimoto
    Institute for Advanced Biosciences, Keio University, Yamagata, Japan
    Electrophoresis 31:2311-8. 2010
    ..9% of the peaks were assigned metabolite names by matching with the standard library alone, the proportion increased to 52.2%. The proposed methodology increases the value of metabolomic data sets obtained from CE-TOFMS profiling...
  31. pmc Metabolite profiling reveals YihU as a novel hydroxybutyrate dehydrogenase for alternative succinic semialdehyde metabolism in Escherichia coli
    Natsumi Saito
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata, 997 0017, Japan
    J Biol Chem 284:16442-51. 2009
    ..These findings suggest that YihU is a novel gamma-hydroxybutyrate dehydrogenase involved in the metabolism of succinic semialdehyde, and other potentially toxic intermediates that may accumulate under stress conditions in E. coli...
  32. ncbi request reprint Model-based definition of population heterogeneity and its effects on metabolism in sporulating Bacillus subtilis
    Mineo Morohashi
    Human Metabolome Technologies, Inc, Tsuruoka, Yamagata 997 0052, Japan
    J Biochem 142:183-91. 2007
    ..The results imply that careful consideration must be made in the interpretation of data obtained from cells yielding population heterogeneity...
  33. ncbi request reprint Capillary electrophoresis-mass spectrometry for metabolomics
    Tomoyoshi Soga
    Institute for Advanced Biosciences, Keio University and Human Metabolome Technologies Inc, Yamagata, Japan
    Methods Mol Biol 358:129-37. 2007
    ..This chapter highlights detailed practical procedures for using this technology...
  34. doi request reprint Metabolomic profiling rationalized pyruvate efficacy in cybrid cells harboring MELAS mitochondrial DNA mutations
    Kenjiro Kami
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997 0017, Japan
    Mitochondrion 12:644-53. 2012
    ....
  35. pmc Hypotaurine is an Energy-Saving Hepatoprotective Compound against Ischemia-Reperfusion Injury of the Rat Liver
    Tadayuki Sakuragawa
    Department of Biochemistry and Integrative Medical Biology, School of Medicine, Keio University, Tokyo 160 8582, Japan
    J Clin Biochem Nutr 46:126-34. 2010
    ..These results suggest that taurine serves as a surrogate marker for ischemia-reperfusion indicating effectiveness of hypotaurine as an energy-saving hepatoprotective amino acid...
  36. ncbi request reprint Large-scale prediction of cationic metabolite identity and migration time in capillary electrophoresis mass spectrometry using artificial neural networks
    Masahiro Sugimoto
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997 0017, Japan
    Anal Chem 77:78-84. 2005
    ..0% of cases. We suggest that this approach can be used for the prediction of the migration time of any cation and that it represents a powerful method for the identification of uncharacterized CE-MS peaks in metabolome analysis...
  37. doi request reprint Quantitative metabolome profiling of colon and stomach cancer microenvironment by capillary electrophoresis time-of-flight mass spectrometry
    Akiyoshi Hirayama
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata, Japan and National Cancer Center Hospital East, Kashiwa, Chiba, Japan
    Cancer Res 69:4918-25. 2009
    ....
  38. doi request reprint Metabolomic anatomy of an animal model revealing homeostatic imbalances in dyslipidaemia
    Takushi Ooga
    Human Metabolome Technologies, Inc, 246 2 Mizukami, Kakuganji, Tsuruoka, Yamagata 997 0052, Japan
    Mol Biosyst 7:1217-23. 2011
    ..These changes were considered to be due to the pleiotropic action of statin, including antioxidant effects, rather than its main inhibitory action on cholesterol biosynthesis...
  39. doi request reprint Global metabolic network reorganization by adaptive mutations allows fast growth of Escherichia coli on glycerol
    Kian Kai Cheng
    1 Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997 0017, Japan 2 Systems Biology Program, Graduate School of Media and Governance, Keio University, Fujisawa, Kanagawa 252 8520, Japan 3 Institute of Bioproduct Development and Department of Bioprocess Engineering, Universiti Teknologi Malaysia, Johor 81310, Malaysia
    Nat Commun 5:3233. 2014
    ..This study provides insight into metabolic reprogramming during adaptive laboratory evolution for fast cellular growth. ..
  40. doi request reprint Comparative metabolite profiling of foxglove aphids (Aulacorthum solani Kaltenbach) on leaves of resistant and susceptible soybean strains
    Dan Sato
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997 0052, Japan
    Mol Biosyst 10:909-15. 2014
    ..These results contribute to an increase in our understanding of soybean aphid resistance mechanisms at the molecular level. ..
  41. doi request reprint Metabolomic profiling of the response of susceptible and resistant soybean strains to foxglove aphid, Aulacorthum solani Kaltenbach
    Dan Sato
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997 0052, Japan
    J Chromatogr B Analyt Technol Biomed Life Sci 925:95-103. 2013
    ..This study demonstrates the metabolomic profiles of both soybean strains and aphids, which will contribute to the molecular level understanding of mechanisms of soybean resistance to aphids...
  42. doi request reprint Metabolic profiling reveals new serum biomarkers for differentiating diabetic nephropathy
    Akiyoshi Hirayama
    Institute for Advanced Biosciences, Keio University, 246 2 Mizukami, Kakuganji, Tsuruoka, Yamagata 997 0052, Japan
    Anal Bioanal Chem 404:3101-9. 2012
    ..Combination of serum metabolomics with multivariate analyses enabled accurate discrimination of DN patients. The results suggest that capillary electrophoresis-mass spectrometry based metabolome analysis could be used for DN diagnosis...
  43. pmc HybGFS: a hybrid method for genome-fingerprint scanning
    Kosaku Shinoda
    Human Metabolome Technologies, Inc, Tsuruoka, Yamagata, 997 0052, Japan
    BMC Bioinformatics 7:479. 2006
    ..Thus, there is a need for novel high-throughput protein-identification methods that are independent of existing predefined protein databases...
  44. ncbi request reprint Application of capillary electrophoresis-mass spectrometry to synthetic in vitro glycolysis studies
    Aya Itoh
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Japan
    Electrophoresis 25:1996-2002. 2004
    ..This approach is likely useful for the synthesis of natural products requiring complex sequential biocatalytic reactions...
  45. doi request reprint Cystathionine beta-synthase as a carbon monoxide-sensitive regulator of bile excretion
    Tsunehiro Shintani
    Department of Biochemistry and Integrative Medical Biology, Department of Surgery, School of Medicine, Keio University, Tokyo, Japan
    Hepatology 49:141-50. 2009
    ....
  46. ncbi request reprint Microelectrospray interface with coaxial sheath flow for high-resolution capillary electrophoresis/mass spectrometry separation
    Masahiko Hashimoto
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997 0017, Japan
    Rapid Commun Mass Spectrom 21:3579-84. 2007
    ..The interface also provides higher separation qualities and improved detection sensitivities compared with a conventional ion spray (IS) interface...
  47. ncbi request reprint Roles of hemoglobin Allostery in hypoxia-induced metabolic alterations in erythrocytes: simulation and its verification by metabolome analysis
    Ayako Kinoshita
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997 0017, Japan
    J Biol Chem 282:10731-41. 2007
    ..These results suggest that Hb allostery in erythrocytes serves as an O(2)-sensing trigger that drives glycolytic acceleration to stabilize intracellular energetics and promote the ability to release O(2) from the cells...
  48. ncbi request reprint Metabolome analysis by capillary electrophoresis-mass spectrometry
    Maria Rowena N Monton
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997 0017, Japan
    J Chromatogr A 1168:237-46; discussion 236. 2007
    ..It also discusses how some of the key features of CE-MS were exploited in selected metabolomic applications...
  49. ncbi request reprint Polymer entrapment in polymerized silicate for preparing highly stable capillary coatings for CE and CE-MS
    Maria Rowena N Monton
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997 0017, Japan
    Anal Chem 79:7838-44. 2007
    ..Thus, two novel types of highly stable coated capillaries, one with anodic EOF and the other cathodic, were developed...
  50. doi request reprint Capillary electrophoresis-mass spectrometry-based metabolome analysis of serum and saliva from neurodegenerative dementia patients
    Mayuko Tsuruoka
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata, Japan Faculty of Environment and Information Studies, Keio University, Fujisawa, Kanagawa, Japan
    Electrophoresis 34:2865-72. 2013
    ..This pilot study revealed novel alterations in metabolomic profiles between various neurodegenerative dementias, which would contribute to etiological investigations. ..
  51. doi request reprint Time-resolved metabolomics of a novel trebouxiophycean alga using (13)CO2 feeding
    Takuro Ito
    Institute for Advanced Biosciences, Keio University, 246 2 Mizukami, Kakuganji, Tsuruoka, Yamagata 997 0052, Japan
    J Biosci Bioeng 116:408-15. 2013
    ..In TCA cycle, anomalistically different of the labeling order was found. To the author's knowledge, this study for the first time in literature, characterize the features of global metabolism in "P. ellipsoidea." ..
  52. doi request reprint Amino acid analysis by capillary electrophoresis-mass spectrometry
    Akiyoshi Hirayama
    Institute for Advanced Biosciences, Keio University, Kakuganji, Tsuruoka, Yamagata, Japan
    Methods Mol Biol 828:77-82. 2012
    ..This method is simple, rapid, and selective and could be readily applied to the analysis of free amino acids in various samples...
  53. pmc MMMDB: Mouse Multiple Tissue Metabolome Database
    Masahiro Sugimoto
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997 0017, Japan
    Nucleic Acids Res 40:D809-14. 2012
    ..Thus, MMMDB allows newly measured data to be compared with the other data in the database. MMMDB is available at: http://mmmdb.iab.keio.ac.jp...
  54. doi request reprint Metabolomic identification of the target of the filopodia protrusion inhibitor glucopiericidin A
    Mitsuhiro Kitagawa
    Department of Biosciences and Informatics, Keio University, Kohokuku, Yokohama, Kanagawa, Japan
    Chem Biol 17:989-98. 2010
    ..Our results represent a challenge of molecular target identification using metabolomic analysis...
  55. doi request reprint Correlation between sensory evaluation scores of Japanese sake and metabolome profiles
    Masahiro Sugimoto
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997 0052, Japan
    J Agric Food Chem 58:374-83. 2010
    ..The methodology demonstrated here carries great potential for predicting the relevant parameters and quantitative relationships between charged metabolites and sensory evaluation in Japanese refined sake...
  56. ncbi request reprint Simultaneous determination of the main metabolites in rice leaves using capillary electrophoresis mass spectrometry and capillary electrophoresis diode array detection
    Shigeru Sato
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997 0035, Japan
    Plant J 40:151-63. 2004
    ....
  57. doi request reprint Sheathless capillary electrophoresis-mass spectrometry with a high-sensitivity porous sprayer for cationic metabolome analysis
    Akiyoshi Hirayama
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997 0052, Japan
    Analyst 137:5026-33. 2012
    ..More than 180 successive runs could be conducted without any problems, and only the BGE needed to be changed...
  58. doi request reprint HIF-1alpha is necessary to support gluconeogenesis during liver regeneration
    Toshihide Tajima
    Department of Obstetrics and Gynecology, Keio University, Shinjuku ku, Tokyo, Japan
    Biochem Biophys Res Commun 387:789-94. 2009
    ..In conclusion, these findings provide evidence for roles of HIF-1alpha in the regulation of gluconeogenesis under liver regeneration...
  59. pmc Positive autoregulation delays the expression phase of mammalian clock gene Per2
    Yukino Ogawa
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata, Japan
    PLoS ONE 6:e18663. 2011
    ..These results indicate that the Per2 positive feedback regulation is a significant factor responsible for generating the phase difference between Per1 and Per2 gene expression...
  60. doi request reprint Biochemical and functional characterization of novel NADH kinase in the enteric protozoan parasite Entamoeba histolytica
    Ghulam Jeelani
    Department of Parasitology, National Institute of Infectious Diseases, 1 23 1 Toyama, Shinjuku, Tokyo 162 8640, Japan
    Biochimie 95:309-19. 2013
    ..These data, together with the essentially of NAD(H) kinase gene, underscore its significance as an NADP(H)-producing enzyme in this organism, and should help in designing of drugs targeting this enzyme...
  61. pmc A yeast metabolite extraction protocol optimised for time-series analyses
    Kalesh Sasidharan
    Institute for Advanced Biosciences, Keio University, Nipponkoku 403 1, Daihouji, Tsuruoka City, Yamagata, Japan
    PLoS ONE 7:e44283. 2012
    ..Cell weight, number and size distribution was used to calculate metabolites to an attomol/cell level. We apply this method to samples obtained from the respiratory oscillation that occurs when yeast are grown continuously...
  62. doi request reprint MassBank: a public repository for sharing mass spectral data for life sciences
    Hisayuki Horai
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997 0035, Japan
    J Mass Spectrom 45:703-14. 2010
    ..6. Thus, MassBank is useful for the identification of chemical compounds and the publication of experimental data...
  63. pmc Evaluation of metabolic alteration in transgenic rice overexpressing dihydroflavonol-4-reductase
    Hideyuki Takahashi
    Institute of Molecular and Cellular Biosciences, The University of Tokyo, 1 1 1 Yayoi, Bunkyo ku, Tokyo 113 0032, Japan
    Ann Bot 98:819-25. 2006
    ..In this study, capillary electrophoresis mass spectrometry analysis (CE/MS) was employed to identify precise metabolites such as organic acids, amino acids and sugars...
  64. ncbi request reprint [Metabolomics: system for genome interacting with environments through chemical substances]
    Takaaki Nishioka
    Tanpakushitsu Kakusan Koso 50:2198-203. 2005
  65. ncbi request reprint Conductivity detection in capillary zone electrophoresis: inspection by PeakMaster
    Michal Jaros
    Faculty of Science, Charles University, CZ 128 040 Prague 2, Czech Republic
    Electrophoresis 26:1948-53. 2005
    ..It is shown that the terms direct and indirect conductivity detection are misleading and should not be used...
  66. pmc Development of bottom-fermenting saccharomyces strains that produce high SO2 levels, using integrated metabolome and transcriptome analysis
    Satoshi Yoshida
    Central Laboratories for Frontier Technology, Kirin Holdings Co, Ltd, 1 13 5 Fukuura Kanazawa ku, Yokohama shi, Kanagawa 236 0004, Japan
    Appl Environ Microbiol 74:2787-96. 2008
    ..One promising mutant produced much higher levels of SO(2) than the parent but produced parental levels of H(2)S...
  67. ncbi request reprint [Analytical system for metabolomics]
    Hideyuki Suzuki
    Tanpakushitsu Kakusan Koso 49:1893-9. 2004