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Part Ⅰ.Introduction 1

Chapter 1：Overview&M.Tomita 1

Part Ⅱ.Analytical Methods for Metabolome Sciences 7

Chapter 2：Development and Application of Capillary Electrophoresis-Mass Spectrometry Methods to Metabolomics&T.Soga 7

Chapter 3：Application of Electrospray Ionization Mass Spectrometry for Metabolomics&R.Taguchi 25

Chapter 4：High-Performance Liquid Chromatography and Liquid Chromatography/Mass Spectrometry Analyses of Metabolites in Microorganisms&H.Miyano 37

Chapter 5：Metabolome Profiling of Human Urine with Capillary Gas Chromatography/Mass Spectrometry&T.Kuhara 53

Chapter 6：Metabolic Profiling by Fourier-Transform Ion Cyclotron Resonance Mass Spectrometry（FT-ICR-MS）and Electrospray Ionization Quadrupole Time-Of-Flight Mass Spectrometry（ESI-Q-TOF-MS）&K.Hirayama 75

Chapter 7：Metabolome Analysis by Capillary Electrophoresis&L.Jia and S.Terabe 91

Chapter 8：High-Performance Liquid Chromatography for Metabolomics：High-Efficiency Separations Utilizing Monolithic Silica Columns&T.Ikegami，H.Kobayashi，H.Kimura，V.V.Tolstikov，O.Fiehn，and N.Tanaka 107

Part Ⅲ.Applications of Metabolome Analysis to Biosciences 127

Chapter 9：Combined Analysis of Metabolome and Transcriptome：Catabolism in Bacillus subtilis&T.Nishioka，K.Matsuda，and Y.Fujita 127

Chapter 10：Metabolomics in Arabidopsis thaliana&K.Saito 141

Chapter 11：Lipidomics：Metabolic Analysis of Phospholipids&R.Taguchi 155

Chapter 12：Chemical Diagnosis of Inborn Errors of Metabolism and Metabolome Analysis of Urine by Capillary Gas Chromatography/Mass Spectrometry&T.Kuhara 167

Part Ⅳ.Metabolome Informatics 193

Chapter 13：Introduction to the ARM Database：Database on Chemical Transformations in Metabolism for Tracing Pathways&M.Arita 193

Chapter 14：The Genome-Based E-CELL Modeling（GEM）System&K.Arakawa，Y.Yamada，K.Shinoda，Y.Nakayama，and M.Tomita 211

Chapter 15：Hybrid Dynamic/Static Method for Large-Scale Simulation of Metabolism and its Implementation to the E-CELL&System&Y.Nakayama 221

Part Ⅴ.Metabolomics and Medical Sciences 233

Chapter 16：Metabolomics and Medical Sciences&T.Nishioka 233

Index 245