Metabolomics: beyond biomarkers and towards mechanisms

geoRge: A Computational Tool To Detect the Presence of Stable Isotope Labeling in LC/MS-Based Untargeted Metabolomics

(2015) Jordi Capellades et al.   ANALYTICAL CHEMISTRY

A molecular structure matching approach to efficient identification of endogenous mammalian biochemical structures

(2015) Mai A Hamdalla et al.   BMC BIOINFORMATICS

Non-lethal Inhibition of Gut Microbial Trimethylamine Production for the Treatment of Atherosclerosis

(2015) Zeneng Wang et al.   CELL

Metabolism Links Bacterial Biofilms and Colon Carcinogenesis

(2015) Caroline H. Johnson et al.   Cell Metabolism

A roadmap for interpreting 13 C metabolite labeling patterns from cells

(2015) Joerg M Buescher et al.   CURRENT OPINION IN BIOTECHNOLOGY

Updates in metabolomics tools and resources: 2014-2015

(2015) Biswapriya B. Misra et al.   ELECTROPHORESIS

Pyruvate carboxylase is critical for non–small-cell lung cancer proliferation

(2015) Katherine Sellers et al.   JOURNAL OF CLINICAL INVESTIGATION

Diacetylspermine Is a Novel Prediagnostic Serum Biomarker for Non–Small-Cell Lung Cancer and Has Additive Performance With Pro-Surfactant Protein B

(2015) William R. Wikoff et al.   JOURNAL OF CLINICAL ONCOLOGY

Alterations in Spinal Cord Metabolism during Treatment of Neuropathic Pain

(2015) Caroline H. Johnson et al.   Journal of Neuroimmune Pharmacology

Global metabolomics reveals metabolic dysregulation in ischemic retinopathy

(2015) Liliana P. Paris et al.   Metabolomics

COordination of Standards in MetabOlomicS (COSMOS): facilitating integrated metabolomics data access

(2015) Reza M. Salek et al.   Metabolomics

Data standards can boost metabolomics research, and if there is a will, there is a way

(2015) Philippe Rocca-Serra et al.   Metabolomics

Defining the Metabolome: Size, Flux, and Regulation

(2015) Nicola Zamboni et al.   MOLECULAR CELL

SHMT2 drives glioma cell survival in ischaemia but imposes a dependence on glycine clearance

(2015) Dohoon Kim et al.   NATURE

The metabolome regulates the epigenetic landscape during naive-to-primed human embryonic stem cell transition

(2015) Henrik Sperber et al.   NATURE CELL BIOLOGY

Global Metabolomic Identification of Long-Term Dose-Dependent Urinary Biomarkers in Nonhuman Primates Exposed to Ionizing Radiation

(2015) Evan L. Pannkuk et al.   RADIATION RESEARCH

pH Gradient Reversal: An Emerging Hallmark of Cancers

(2015) Mohit Sharma et al.   Recent Patents on Anti-Cancer Drug Discovery

Commensal Bifidobacterium promotes antitumor immunity and facilitates anti-PD-L1 efficacy

(2015) A. Sivan et al.   SCIENCE

Anticancer immunotherapy by CTLA-4 blockade relies on the gut microbiota

(2015) M. Vetizou et al.   SCIENCE

Fat, fibre and cancer risk in African Americans and rural Africans

(2015) Stephen J. D. O’Keefe et al.   Nature Communications

Inhibition of the mevalonate pathway affects epigenetic regulation in cancer cells

(2015) Heidrun Karlic et al.   Cancer Genetics

Arteriovenous Blood Metabolomics: A Readout of Intra-Tissue Metabostasis

(2015) Julijana Ivanisevic et al.   Scientific Reports

Probing the Metabolic Network in Bloodstream-Form Trypanosoma brucei Using Untargeted Metabolomics with Stable Isotope Labelled Glucose

(2015) Darren J. Creek et al.   PLoS Pathogens

Adaptation of the human aryl hydrocarbon receptor to sense microbiota-derived indoles

(2015) Troy D. Hubbard et al.   Scientific Reports

The food metabolome: a window over dietary exposure

(2014) Augustin Scalbert et al.   AMERICAN JOURNAL OF CLINICAL NUTRITION

Interactive XCMS Online: Simplifying Advanced Metabolomic Data Processing and Subsequent Statistical Analyses

(2014) Harsha Gowda et al.   ANALYTICAL CHEMISTRY

X13CMS: Global Tracking of Isotopic Labels in Untargeted Metabolomics

(2014) Xiaojing Huang et al.   ANALYTICAL CHEMISTRY

Bioinformatics: The Next Frontier of Metabolomics

(2014) Caroline H. Johnson et al.   ANALYTICAL CHEMISTRY

Ion Mobility Derived Collision Cross Sections to Support Metabolomics Applications

(2014) Giuseppe Paglia et al.   ANALYTICAL CHEMISTRY

Differential Incorporation of Glucose into Biomass during Warburg Metabolism

(2014) Ying-Jr Chen et al.   BIOCHEMISTRY

Noninvasive Urinary Metabolomic Profiling Identifies Diagnostic and Prognostic Markers in Lung Cancer

(2014) E. A. Mathe et al.   CANCER RESEARCH

Multilayered Genetic and Omics Dissection of Mitochondrial Activity in a Mouse Reference Population

(2014) Yibo Wu et al.   CELL

The Furan Fatty Acid Metabolite CMPF Is Elevated in Diabetes and Induces β Cell Dysfunction

(2014) Kacey J. Prentice et al.   Cell Metabolism

Brain Region Mapping Using Global Metabolomics

(2014) Julijana Ivanisevic et al.   CHEMISTRY & BIOLOGY

Intracellular α-ketoglutarate maintains the pluripotency of embryonic stem cells

(2014) Bryce W. Carey et al.   NATURE

Quantitative flux analysis reveals folate-dependent NADPH production

(2014) Jing Fan et al.   NATURE

Ischaemic accumulation of succinate controls reperfusion injury through mitochondrial ROS

(2014) Edward T. Chouchani et al.   NATURE

An atlas of genetic influences on human blood metabolites

(2014) So-Youn Shin et al.   NATURE GENETICS

The gut microbiota, bacterial metabolites and colorectal cancer

(2014) Petra Louis et al.   NATURE REVIEWS MICROBIOLOGY

Dietary Polyamine Intake and Polyamines Measured in Urine

(2014) Ashley J. Vargas et al.   NUTRITION AND CANCER-AN INTERNATIONAL JOURNAL

Microbiota organization is a distinct feature of proximal colorectal cancers

(2014) Christine M. Dejea et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Contribution of Network Connectivity in Determining the Relationship between Gene Expression and Metabolite Concentration Changes

(2014) Aleksej Zelezniak et al.   PLoS Computational Biology

Targeting T Cell Immunometabolism for Cancer Immunotherapy; Understanding the Impact of the Tumor Microenvironment

(2014) Mary B. Mockler et al.   Frontiers in Oncology

Automatic Chemical Structure Annotation of an LC–MSn Based Metabolic Profile from Green Tea

(2013) Lars Ridder et al.   ANALYTICAL CHEMISTRY

Microbiota Modulate Behavioral and Physiological Abnormalities Associated with Neurodevelopmental Disorders

(2013) Elaine Y. Hsiao et al.   CELL

MetFusion: integration of compound identification strategies

(2013) Michael Gerlich et al.   JOURNAL OF MASS SPECTROMETRY

A novel stable isotope labelling assisted workflow for improved untargeted LC–HRMS based metabolomics research

(2013) Christoph Bueschl et al.   Metabolomics

Understanding Metabolic Regulation and Its Influence on Cell Physiology

(2013) Christian M. Metallo et al.   MOLECULAR CELL

A community-driven global reconstruction of human metabolism

(2013) Ines Thiele et al.   NATURE BIOTECHNOLOGY

NNMT promotes epigenetic remodeling in cancer by creating a metabolic methylation sink

(2013) Olesya A Ulanovskaya et al.   Nature Chemical Biology

Intestinal microbiota metabolism of l-carnitine, a nutrient in red meat, promotes atherosclerosis

(2013) Robert A Koeth et al.   NATURE MEDICINE

Intestinal Microbial Metabolism of Phosphatidylcholine and Cardiovascular Risk

(2013) W.H. Wilson Tang et al.   NEW ENGLAND JOURNAL OF MEDICINE

Gut Microbiota from Twins Discordant for Obesity Modulate Metabolism in Mice

(2013) V. K. Ridaura et al.   SCIENCE

Predicting Network Activity from High Throughput Metabolomics

(2013) Shuzhao Li et al.   PLoS Computational Biology

XCMS Online: A Web-Based Platform to Process Untargeted Metabolomic Data

(2012) Ralf Tautenhahn et al.   ANALYTICAL CHEMISTRY

Stable Isotope-Assisted Metabolomics for Network-Wide Metabolic Pathway Elucidation

(2012) Darren J. Creek et al.   ANALYTICAL CHEMISTRY

Metabolic profiling detects early effects of environmental and lifestyle exposure to cadmium in a human population

(2012) James K Ellis et al.   BMC Medicine

HMDB 3.0—The Human Metabolome Database in 2013

(2012) David S. Wishart et al.   NUCLEIC ACIDS RESEARCH

Radiation Metabolomics. 5. Identification of Urinary Biomarkers of Ionizing Radiation Exposure in Nonhuman Primates by Mass Spectrometry-Based Metabolomics

(2012) Caroline H. Johnson et al.   RADIATION RESEARCH

Xenobiotic Metabolomics: Major Impact on the Metabolome

(2011) Caroline H. Johnson et al.   Annual Review of Pharmacology and Toxicology

Challenges and opportunities of metabolomics

(2011) Caroline H. Johnson et al.   JOURNAL OF CELLULAR PHYSIOLOGY

Gut flora metabolism of phosphatidylcholine promotes cardiovascular disease

(2011) Zeneng Wang et al.   NATURE

Radiation Metabolomics. 4. UPLC-ESI-QTOFMS-Based Metabolomics for Urinary Biomarker Discovery in Gamma-Irradiated Rats

(2011) Caroline H Johnson et al.   RADIATION RESEARCH

In silico fragmentation for computer assisted identification of metabolite mass spectra

(2010) Sebastian Wolf et al.   BMC BIOINFORMATICS

MZmine 2: Modular framework for processing, visualizing, and analyzing mass spectrometry-based molecular profile data

(2010) Tomáš Pluskal et al.   BMC BIOINFORMATICS

Extensive In Vivo Metabolite-Protein Interactions Revealed by Large-Scale Systematic Analyses

(2010) Xiyan Li et al.   CELL

Evaluating the utility of N1,N12-diacetylspermine and N1,N8-diacetylspermidine in urine as tumor markers for breast and colorectal cancers

(2010) Yoshifumi Umemori et al.   CLINICA CHIMICA ACTA

Glycine and a Glycine Dehydrogenase (GLDC) SNP as Citalopram/Escitalopram Response Biomarkers in Depression: Pharmacometabolomics-Informed Pharmacogenomics

(2010) Y Ji et al.   CLINICAL PHARMACOLOGY & THERAPEUTICS

MassBank: a public repository for sharing mass spectral data for life sciences

(2010) Hisayuki Horai et al.   JOURNAL OF MASS SPECTROMETRY

Metabolic oxidation regulates embryonic stem cell differentiation

(2010) Oscar Yanes et al.   Nature Chemical Biology

MetExplore: a web server to link metabolomic experiments and genome-scale metabolic networks

(2010) L. Cottret et al.   NUCLEIC ACIDS RESEARCH

MSEA: a web-based tool to identify biologically meaningful patterns in quantitative metabolomic data

(2010) J. Xia et al.   NUCLEIC ACIDS RESEARCH

Metabolomic profiles delineate potential role for sarcosine in prostate cancer progression

(2009) Arun Sreekumar et al.   NATURE

MetaboAnalyst: a web server for metabolomic data analysis and interpretation

(2009) J. Xia et al.   NUCLEIC ACIDS RESEARCH

ATP-Citrate Lyase Links Cellular Metabolism to Histone Acetylation

(2009) K. E. Wellen et al.   SCIENCE

The NAD+-Dependent Deacetylase SIRT1 Modulates CLOCK-Mediated Chromatin Remodeling and Circadian Control

(2008) Yasukazu Nakahata et al.   CELL