Defining the Metabolome: Size, Flux, and Regulation

Zamboni, Nicola; Saghatelian, Alan; Patti, Gary J.

doi:10.1016/j.molcel.2015.04.021

Cited by 253 publications

(220 citation statements)

References 52 publications

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“…As suggested by Zamboni et al [40], metabolic flux analysis could represent the gold standard to provide biological insights and information about differences in reaction rates.…”

Section: The Genetic Influences On Metabolic Phenotypesmentioning

confidence: 99%

The foodomics approach for discovering biomarkers of food consumption in nutrition studies

Bordoni

Capozzi

2015

Current Opinion in Food Science

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“…As suggested by Zamboni et al [40], metabolic flux analysis could represent the gold standard to provide biological insights and information about differences in reaction rates.…”

Section: The Genetic Influences On Metabolic Phenotypesmentioning

confidence: 99%

The foodomics approach for discovering biomarkers of food consumption in nutrition studies

Bordoni

Capozzi

2015

Current Opinion in Food Science

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“…Liquid chromatography-mass spectrometry (LC-MS)-based untargeted metabolomics has enabled broad and comprehensive coverage of tens of thousands of discrete metabolites from cells, biofluids, and tissues, hence becoming the primary platform for metabolic profiling experiments [2,[7][8][9][10][11][12][13][14]. One of the key issues in LC-MSbased metabolomics is the accurate analysis of enormous amount of data.…”

Section: Introductionmentioning

confidence: 99%

Untargeted LC–MS Data Preprocessing in Metabolomics

Tian

Shui

2017

J. Anal. Test.

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Liquid chromatography-mass spectrometry (LC-MS) has enabled the detection of thousands of metabolite features from a single biological sample that produces large and complex datasets. One of the key issues in LC-MS-based metabolomics is comprehensive and accurate analysis of enormous amount of data. Many free data preprocessing tools, such as XCMS, MZmine, MAVEN, and MetaboAnalyst, as well as commercial software, have been developed to facilitate data processing. However, researchers are challenged by the inevitable and unconquerable yields of numerous false-positive peaks, and human errors while manually removing such false peaks. Even with continuous improvements of data processing tools, there can still be many mistakes generated during data preprocessing. In addition, many data preprocessing software exist, and every tool has its own advantages and disadvantages. Thereby, a researcher needs to judge what kind of software or tools to choose that most suit their vendor proprietary formats and goal of downstream analysis. Here, we provided a brief introduction of the general steps of raw MS data processing, and properties of automated data processing tools. Then, characteristics of mainly free data preprocessing software were summarized for researchers' consideration in conducting metabolomics study.

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“…[4][5][6] All of these metabolites constitute the metabolome, which is ultimately linked to the processes of life and the functional outcome of the activity of other biomolecules (i.e., those of the genome, transcriptome and proteome). 7,8 Thus, metabolic activity is a reflection of an organism's activities that are required for it to survive, grow and respond to various internal and external stimuli or insults such as pathologies, treatments, or life-style factors (Figure 1). After a long developmental period, metabolomics has reached a form of maturity and is now a wellaccepted approach in which researchers are exhibiting increasing interest.…”

Section: Introduction: Metabolomics and Medicinal Chemistrymentioning

confidence: 99%

Metabolomics as a Challenging Approach for Medicinal Chemistry and Personalized Medicine

et al. 2016

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"Omics" sciences have been developed to provide a holistic point of view of biology and to better understand the complexity of an organism as a whole. These systems biology approaches can be examined at different levels, starting from the most fundamental, i.e., the genome, and finishing with the most functional, i.e., the metabolome. Similar to how genomics is applied to the exploration of DNA, metabolomics is the qualitative and quantitative study of metabolites. This emerging field is clearly linked to genomics, transcriptomics, and proteomics. In addition, metabolomics provides a unique and direct vision of the functional outcome of an organism's activities that are required for it to survive, grow, and respond to internal and external stimuli or stress, e.g., pathologies and drugs. The links between metabolic changes, patient phenotype, physiological and/or pathological status, and treatment are now well established and have opened a new area for the application of metabolomics in the drug discovery process and in personalized medicine.

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Defining the Metabolome: Size, Flux, and Regulation

Cited by 253 publications

References 52 publications

The foodomics approach for discovering biomarkers of food consumption in nutrition studies

The foodomics approach for discovering biomarkers of food consumption in nutrition studies

Untargeted LC–MS Data Preprocessing in Metabolomics

Metabolomics as a Challenging Approach for Medicinal Chemistry and Personalized Medicine

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