The dynamic collection of metabolites which represent a cell's or organism's net metabolic response to current conditions.
The systematic identification and quantitation of all the metabolic products of a cell, tissue, organ, or organism under varying conditions. The METABOLOME of a cell or organism is a dynamic collection of metabolites which represent its net response to current conditions.
A microanalytical technique combining mass spectrometry and gas chromatography for the qualitative as well as quantitative determinations of compounds.
An analytical method used in determining the identity of a chemical based on its mass using mass analyzers/mass spectrometers.
The chemical reactions that occur within the cells, tissues, or an organism. These processes include both the biosynthesis (ANABOLISM) and the breakdown (CATABOLISM) of organic materials utilized by the living organism.
Mathematical procedure that transforms a number of possibly correlated variables into a smaller number of uncorrelated variables called principal components.
Chromatographic techniques in which the mobile phase is a liquid.
Abnormal SEX DIFFERENTIATION or congenital DISORDERS OF SEX DEVELOPMENT caused by abnormal levels of steroid hormones expressed by the GONADS or the ADRENAL GLANDS, such as in CONGENITAL ADRENAL HYPERPLASIA and ADRENAL CORTEX NEOPLASMS. Due to abnormal steroid biosynthesis, clinical features include VIRILISM in females; FEMINIZATION in males; or precocious sexual development in children.
Complex sets of enzymatic reactions connected to each other via their product and substrate metabolites.
Errors in metabolic processing of STEROIDS resulting from inborn genetic mutations that are inherited or acquired in utero.
A physiochemical process which occurs in a wide range of organisms which unlike BASAL METABOLISM is not required for or essential to short-term survivability but to long-term general well-being of the organism.
Organic compounds that have a relatively high VAPOR PRESSURE at room temperature.
A highly-sensitive (in the picomolar range, which is 10,000-fold more sensitive than conventional electrophoresis) and efficient technique that allows separation of PROTEINS; NUCLEIC ACIDS; and CARBOHYDRATES. (Segen, Dictionary of Modern Medicine, 1992)
The protein complement of an organism coded for by its genome.
Spectroscopic method of measuring the magnetic moment of elementary particles such as atomic nuclei, protons or electrons. It is employed in clinical applications such as NMR Tomography (MAGNETIC RESONANCE IMAGING).
Comprehensive, methodical analysis of complex biological systems by monitoring responses to perturbations of biological processes. Large scale, computerized collection and analysis of the data are used to develop and test models of biological systems.
A nonmetallic element with atomic symbol C, atomic number 6, and atomic weight [12.0096; 12.0116]. It may occur as several different allotropes including DIAMOND; CHARCOAL; and GRAPHITE; and as SOOT from incompletely burned fuel.
The heath plant family of the order Ericales, subclass Dilleniidae, class Magnoliopsida that are generally shrubs or small trees. Leaves are alternate, simple, and leathery; flowers are symmetrical with a 4- or 5-parted corolla of partly fused petals.
Theoretical representations that simulate the behavior or activity of biological processes or diseases. For disease models in living animals, DISEASE MODELS, ANIMAL is available. Biological models include the use of mathematical equations, computers, and other electronic equipment.
The pattern of GENE EXPRESSION at the level of genetic transcription in a specific organism or under specific circumstances in specific cells.
The determination of the pattern of genes expressed at the level of GENETIC TRANSCRIPTION, under specific circumstances or in a specific cell.
A metabolic process that converts GLUCOSE into two molecules of PYRUVIC ACID through a series of enzymatic reactions. Energy generated by this process is conserved in two molecules of ATP. Glycolysis is the universal catabolic pathway for glucose, free glucose, or glucose derived from complex CARBOHYDRATES, such as GLYCOGEN and STARCH.
Any of the processes by which nuclear, cytoplasmic, or intercellular factors influence the differential control of gene action in plants.
A collective genome representative of the many organisms, primarily microorganisms, existing in a community.
A mass spectrometry technique used for analysis of nonvolatile compounds such as proteins and macromolecules. The technique involves preparing electrically charged droplets from analyte molecules dissolved in solvent. The electrically charged droplets enter a vacuum chamber where the solvent is evaporated. Evaporation of solvent reduces the droplet size, thereby increasing the coulombic repulsion within the droplet. As the charged droplets get smaller, the excess charge within them causes them to disintegrate and release analyte molecules. The volatilized analyte molecules are then analyzed by mass spectrometry.
A plant genus of the family BRASSICACEAE that contains ARABIDOPSIS PROTEINS and MADS DOMAIN PROTEINS. The species A. thaliana is used for experiments in classical plant genetics as well as molecular genetic studies in plant physiology, biochemistry, and development.
Sets of enzymatic reactions occurring in organisms and that form biochemicals by making new covalent bonds.
An oxidative decarboxylation process that converts GLUCOSE-6-PHOSPHATE to D-ribose-5-phosphate via 6-phosphogluconate. The pentose product is used in the biosynthesis of NUCLEIC ACIDS. The generated energy is stored in the form of NADPH. This pathway is prominent in tissues which are active in the synthesis of FATTY ACIDS and STEROIDS.
A solventless sample preparation method, invented in 1989, that uses a fused silica fiber which is coated with a stationary phase. It is used for sample cleanup before using other analytical methods.
A mass spectrometry technique using two (MS/MS) or more mass analyzers. With two in tandem, the precursor ions are mass-selected by a first mass analyzer, and focused into a collision region where they are then fragmented into product ions which are then characterized by a second mass analyzer. A variety of techniques are used to separate the compounds, ionize them, and introduce them to the first mass analyzer. For example, for in GC-MS/MS, GAS CHROMATOGRAPHY-MASS SPECTROMETRY is involved in separating relatively small compounds by GAS CHROMATOGRAPHY prior to injecting them into an ionization chamber for the mass selection.
Extensive collections, reputedly complete, of facts and data garnered from material of a specialized subject area and made available for analysis and application. The collection can be automated by various contemporary methods for retrieval. The concept should be differentiated from DATABASES, BIBLIOGRAPHIC which is restricted to collections of bibliographic references.
Organic compounds that generally contain an amino (-NH2) and a carboxyl (-COOH) group. Twenty alpha-amino acids are the subunits which are polymerized to form proteins.
Expanded structures, usually green, of vascular plants, characteristically consisting of a bladelike expansion attached to a stem, and functioning as the principal organ of photosynthesis and transpiration. (American Heritage Dictionary, 2d ed)
A principle of estimation in which the estimates of a set of parameters in a statistical model are those quantities minimizing the sum of squared differences between the observed values of a dependent variable and the values predicted by the model.
Lists of words, usually in alphabetical order, giving information about form, pronunciation, etymology, grammar, and meaning.
The terms, expressions, designations, or symbols used in a particular science, discipline, or specialized subject area.
The state of being deprived of sleep under experimental conditions, due to life events, or from a wide variety of pathophysiologic causes such as medication effect, chronic illness, psychiatric illness, or sleep disorder.
A readily reversible suspension of sensorimotor interaction with the environment, usually associated with recumbency and immobility.
A stage of sleep characterized by rapid movements of the eye and low voltage fast pattern EEG. It is usually associated with dreaming.
A state in which there is an enhanced potential for sensitivity and an efficient responsiveness to external stimuli.
The regular recurrence, in cycles of about 24 hours, of biological processes or activities, such as sensitivity to drugs and stimuli, hormone secretion, sleeping, and feeding.
A species of the genus SACCHAROMYCES, family Saccharomycetaceae, order Saccharomycetales, known as "baker's" or "brewer's" yeast. The dried form is used as a dietary supplement.
Proteins obtained from the species SACCHAROMYCES CEREVISIAE. The function of specific proteins from this organism are the subject of intense scientific interest and have been used to derive basic understanding of the functioning similar proteins in higher eukaryotes.
A general term for single-celled rounded fungi that reproduce by budding. Brewers' and bakers' yeasts are SACCHAROMYCES CEREVISIAE; therapeutic dried yeast is YEAST, DRIED.
An endoribonuclease that is specific for double-stranded RNA. It plays a role in POST-TRANSCRIPTIONAL RNA PROCESSING of pre-RIBOSOMAL RNA and a variety of other RNA structures that contain double-stranded regions.
Encrustations, formed from microbes (bacteria, algae, fungi, plankton, or protozoa) embedding in extracellular polymers, that adhere to surfaces such as teeth (DENTAL DEPOSITS); PROSTHESES AND IMPLANTS; and catheters. Biofilms are prevented from forming by treating surfaces with DENTIFRICES; DISINFECTANTS; ANTI-INFECTIVE AGENTS; and antifouling agents.
Discussions, descriptions or catalogs of public displays or items representative of a given subject.
Persons as individuals (e.g., ABORTION APPLICANTS) or as members of a group (e.g., HISPANIC AMERICANS). It is not used for members of the various professions (e.g., PHYSICIANS) or occupations (e.g., LIBRARIANS) for which OCCUPATIONAL GROUPS is available.
Rare cutaneous eruption characterized by extensive KERATINOCYTE apoptosis resulting in skin detachment with mucosal involvement. It is often provoked by the use of drugs (e.g., antibiotics and anticonvulsants) or associated with PNEUMONIA, MYCOPLASMA. It is considered a continuum of Toxic Epidermal Necrolysis.

CSF metabolic and proteomic profiles in patients prodromal for psychosis. (1/1048)

BACKGROUND: The initial prodromal state of psychosis (IPS) is defined as an early disease stage prior to the onset of overt psychosis characterized by sub-threshold or more unspecific psychiatric symptoms. Little is known regarding the biochemical changes during this period. METHODOLOGY/PRINCIPAL FINDINGS: We investigated the metabolic/proteomic profiles of cerebrospinal fluid (CSF) of first-onset drug naive paranoid schizophrenia patients (n = 54) and individuals presenting with initial prodromal symptoms (n = 24), alongside healthy volunteers (n = 70) using proton nuclear magnetic resonance ((1)H-NMR) spectroscopy and surface enhanced laser desorption ionization (SELDI) mass spectrometry, respectively. Partial least square discriminant analysis (PLS-DA) showed that 36%/29% of IPS patients displayed proteomic/metabolic profiles characteristic of first-onset, drug naive schizophrenia, i.e., changes in levels of glucose and lactate as well as changes in a VGF-derived peptide (VGF23-62) and transthyretin protein concentrations. However, only 29% (n = 7) of the investigated IPS patients (who to date have been followed up for up to three years) have so far received a diagnosis of schizophrenia. The presence of biochemical alterations in the IPS group did not correlate with the risk to develop schizophrenia. CONCLUSIONS/SIGNIFICANCE: Our results imply that schizophrenia-related biochemical disease processes can be traced in CSF of prodromal patients. However, the biochemical disturbances identified in IPS patients, at least when measured at a single time point, may not be sufficient to predict clinical outcome.  (+info)

Metabolite quantification and high-field MRS in breast cancer. (2/1048)

In vivo 1H MRS is rapidly developing as a clinical tool for diagnosing and characterizing breast cancers. Many in vivo and in vitro experiments have demonstrated that alterations in concentrations of choline-containing metabolites are associated with malignant transformation. In recent years, considerable efforts have been made to evaluate the role of 1H MRS measurements of total choline-containing compounds in the management of patients with breast cancer. Current technological developments, including the use of high-field MR scanners and quantitative spectroscopic analysis methods, promise to increase the sensitivity and accuracy of breast MRS. This article reviews the literature describing in vivo MRS in breast cancer, with an emphasis on the development of high-field MR scanning and quantitative methods. Potential applications of these technologies for diagnosing suspicious lesions and monitoring response to chemotherapy are discussed.  (+info)

Perceiving molecular evolution processes in Escherichia coli by comprehensive metabolite and gene expression profiling. (3/1048)

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Metadegradomics: toward in vivo quantitative degradomics of proteolytic post-translational modifications of the cancer proteome. (4/1048)

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Metabolic profiling of an Echinostoma caproni infection in the mouse for biomarker discovery. (5/1048)

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Phenotyping murine models of non-alcoholic fatty liver disease through metabolic profiling of intact liver tissue. (6/1048)

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Gene module level analysis: identification to networks and dynamics. (7/1048)

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Genome-scale model for Clostridium acetobutylicum: Part II. Development of specific proton flux states and numerically determined sub-systems. (8/1048)

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TY - JOUR. T1 - Metabolome analysis for investigating host-gut microbiota interactions. AU - Chen, Michael X.. AU - Wang, San Yuan. AU - Kuo, Ching Hua. AU - Tsai, I. Lin. PY - 2019/3. Y1 - 2019/3. N2 - Dysbiosis of the gut microbiome is associated with host health conditions. Many diseases have shown to have correlations with imbalanced microbiota, including obesity, inflammatory bowel disease, cancer, and even neurodegeneration disorders. Metabolomics studies targeting small molecule metabolites that impact the host metabolome and their biochemical functions have shown promise for studying host-gut microbiota interactions. Metabolome analysis determines the metabolites being discussed for their biological implications in host-gut microbiota interactions. To facilitate understanding the critical aspects of metabolome analysis, this article reviewed (1) the sample types used in host-gut microbiome studies; (2) mass spectrometry (MS)-based analytical methods and (3) useful tools for MS-based data ...
BACKGROUND: Long-term physical inactivity seems to cause many health problems. We studied whether persistent physical activity compared with inactivity has a global effect on serum metabolome toward reduced cardiometabolic disease risk.METHODS AND RESULTS: Sixteen same-sex twin pairs (mean age, 60 years) were selected from a cohort of twin pairs on the basis of their ,30-year discordance for physical activity. Persistently (≥5 years) active and inactive groups in 3 population-based cohorts (mean ages, 31-52 years) were also studied (1037 age- and sex-matched pairs). Serum metabolome was quantified by nuclear magnetic resonance spectroscopy. We used permutation analysis to estimate the significance of the multivariate effect combined across all metabolic measures; univariate effects were estimated by paired testing in twins and in matched pairs in the cohorts, and by meta-analysis over all substudies. Persistent physical activity was associated with the multivariate metabolic profile in the ...
Insulin resistance is a forerunner state of ischaemic cardiovascular disease and type 2 diabetes. Here we show how the human gut microbiome impacts the serum metabolome and associates with insulin resistance in 277 non-diabetic Danish individuals. The serum metabolome of insulin-resistant individuals is characterized by increased levels of branched-chain amino acids (BCAAs), which correlate with a gut microbiome that has an enriched biosynthetic potential for BCAAs and is deprived of genes encoding bacterial inward transporters for these amino acids. Prevotella copri and Bacteroides vulgatus are identified as the main species driving the association between biosynthesis of BCAAs and insulin resistance, and in mice we demonstrate that P. copri can induce insulin resistance, aggravate glucose intolerance and augment circulating levels of BCAAs. Our findings suggest that microbial targets may have the potential to diminish insulin resistance and reduce the incidence of common metabolic and cardiovascular
Background/Purpose Acyclic retinoid (ACR) is a promising chemopreventive agent for hepatocellular carcinoma (HCC) that selectively inhibits the growth of HCC cells (JHH7) but not normal hepatic cells (Hc). To better understand the molecular basis of the selective anti-cancer effect of ACR, we performed nuclear magnetic resonance (NMR)-based and capillary electrophoresis time-of-flight mass spectrometry (CE-TOFMS)-based metabolome analyses in JHH7 and Hc cells after treatment with ACR. Methodology/Principal Findings NMR-based metabolomics revealed a distinct metabolomic profile of JHH7 cells at 18 h after ACR treatment but not at 4 h after ACR treatment. CE-TOFMS analysis identified 88 principal metabolites in JHH7 and Hc cells after 24 h of treatment with ethanol (EtOH) or ACR. The abundance of 71 of these metabolites was significantly different between EtOH-treated control JHH7 and Hc cells, and 49 of these metabolites were significantly down-regulated in the ACR-treated JHH7 cells compared to the
One obvious question raised is the origin of these amino acids. Under limited blood supply, two main sources of amino acids can be conceived: one is the degradation of extracellular matrix particularly by matrix metalloproteinases and the other is the autophagic degradation of preexisting intracellular proteins. In this perspective, it is notable that hydroxyproline concentration was significantly higher in tumor tissues than in their normal counterparts (P = 0.0005 in colon and P = 0.0025 in stomach tissues). Hydroxyproline is abundant in collagen and is posttranslationally produced from proline, which suggests that the higher concentration of hydroxyproline in tumor tissues is indicative of excess degradation of collagen ( 35). Autophagy is another possible source of amino acids, as it is well-documented that autophagy liberates and thereby increases the free amino acid pools ( 36, 37). We also have found recently that autophagy seems essential for colon cancer cell survival ( 38) and is ...
The Yeast Metabolome Database (YMDB, http://www.ymdb.ca) is a richly annotated metabolomic database containing detailed information about the metabolome of Saccharomyces cerevisiae. Modeled closely after the Human Metabolome Database, the YMDB contains |2000 metabolites with links to 995 differ …
The Urine Metabolome Database is offered to the public as a freely available resource. Use and re-distribution of the data, in whole or in part, for commercial purposes requires explicit permission of the authors and explicit acknowledgment of the source material (Urine Metabolome Database) and the original publication (see below). We ask that users who download significant portions of the database cite the Urine Metabolome Database paper in any resulting publications.. How to cite the Urine Metabolome Database ...
Define metabolome. metabolome synonyms, metabolome pronunciation, metabolome translation, English dictionary definition of metabolome. n. The complete set of chemical compounds involved in an organisms metabolism. me·tab′o·lom′ic adj. American Heritage® Dictionary of the English Language,...
Wishart DS, Knox C, Guo AC, Eisner R, Young N, Gautam B, Hau DD, Psychogios N, Dong E, Bouatra S, Mandal R, Sinelnikov I, Xia J, Jia L, Cruz JA, Lim E, Sobsey CA, Shrivastava S, Huang P, Liu P, Fang L, Peng J, Fradette R, Cheng D, Tzur D, Clements M, Lewis A, De Souza A, Zuniga A, Dawe M, Xiong Y, Clive D, Greiner R, Nazyrova A, Shaykhutdinov R, Li L, Vogel HJ, Forsythe I: HMDB: a knowledgebase for the human metabolome. Nucleic Acids Res. 2009 Jan;37(Database issue):D603-10. doi: 10.1093/nar/gkn810. Epub 2008 Oct 25. [PubMed: 18953024 ...
Since early 2000, a number of metabolome analyses have been demonstrated using combined hyphenated chromatographic and mass spectral methods as well as nuclear-magnetic-resonance. Although metabolite profiling experiments are becoming routine in many research groups, making the studies remains expensive and laborious. While the metabolomics community is working towards the setup of sharing metabolome data, mining publicly available information and demonstrating the richness of integration of multiple metabolome datasets remain largely unexploited. The aims of this project are (1) to establish a new web-based platform for metabolome meta-analysis and (2) to use these sets of combined metabolite levels to explore the diversity of complex metabolic networks in the model plant, Arabidopsis thaliana. We constructed our database, called AtMetExpress (http://prime.psc.riken.jp/AtMetExpress/), to store the metabolome information ...
Background Recent evidence indicates that the gut microbiota is altered considerably by a variety of commonly prescribed medications. This study assessed the impact of two antidiabetic therapeutics on the gut microbiota and markers of cardiometabolic disease in metabolically dysfunctional mice. Materials & Methods C57BL/6 mice were fed a high-fat diet for 24-weeks while receiving one of two antidiabetic therapeutics - metformin or DPP-4 inhibitor, PKF-275-055 - for the final 12 weeks. Mice were assessed for weight gain, glucose and cholesterol metabolism, and adiposity. In addition, caecal microbiota was analysed by 16S compositional sequencing and plasma metabolome was analysed by LC-MS/MS. Results Both therapeutics had similar metabolic effects, attenuating mesenteric adiposity, improving cholesterol metabolism and insulin sensitivity. However, multivariate analyses of microbiota and metabolomics data revealed clear divergence of the therapeutic groups. While both metformin and PKF-275-055 ...
Raman M, Ahmed I, Gillevet PM, Probert CS, Ratcliffe NM, Smith S, Greenwood R, Sikaroodi M, Lam V, Crotty P, Bailey J, Myers RP, Rioux KP: Fecal microbiome and volatile organic compound metabolome in obese humans with nonalcoholic fatty liver disease. Clin Gastroenterol Hepatol. 2013 Jul;11(7):868-75.e1-3. doi: 10.1016/j.cgh.2013.02.015. Epub 2013 Feb 27. [PubMed:23454028 ...
Principal Investigator:SOGA Tomoyoshi, Project Period (FY):2010-04-01 - 2015-03-31, Research Category:Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area), Project Area:Integrative Systems Understanding of Cancer for Advanced Diagnosis, Therapy and Prevention
Thermo Fisher Scientific and BIOCRATES Life Sciences launch a ready-to-use kit for accurate and confident metabolic phenotyping on high-resolution mass spectrometry instruments.
Background: As economical traits, food habits domestication can reduce production cost in aquaculture. However, the molecular mechanism underlying food habits domestication has remained elusive. Mandarin fish (Siniperca chuatsi) only feed on live prey fish and refuse ...
Cancer cells often have dysregulated metabolism, which is largely characterized by the Warburg effect-an increase in glycolytic activity at the expense of oxidative phosphorylation-and increased glutamine utilization. Modern metabolomics tools offer an efficient means to investigate metabolism in cancer cells. Currently, a number of protocols have been described for harvesting adherent cells for metabolomics analysis, but the techniques vary greatly and they lack specificity to particular cancer cell lines with diverse metabolic and structural features. Here we present an optimized method for untargeted metabolomics characterization of MDA-MB-231 triple negative breast cancer cells, which are commonly used to study metastatic breast cancer. We found that an approach that extracted all metabolites in a single step within the culture dish optimally detected both polar and non-polar metabolite classes with higher relative abundance than methods that involved removal of cells from the dish. We show that
Background: immune-mediated inflammatory diseases (IMIDs) are a group of complex and prevalent diseases where disease diagnostic and activity monitoring is highly challenging. The determination of the metabolite profiles of biological samples is becoming a powerful approach to identify new biomarkers of clinical utility. In order to identify new metabolite biomarkers of diagnosis and disease activity, we have performed the first large-scale profiling of the urine metabolome of the six most prevalent IMIDs: rheumatoid arthritis, psoriatic arthritis, psoriasis, systemic lupus erythematosus, Crohns disease, and ulcerative colitis. Methods: using nuclear magnetic resonance, we analyzed the urine metabolome in a discovery cohort of 1210 patients and 100 controls. Within each IMID, two patient subgroups were recruited representing extreme disease activity (very high vs. very low). Metabolite association analysis with disease diagnosis and disease activity was performed using multivariate linear ...
BACKGROUND: Adrenal aldosterone excess is the most common cause of secondary hypertension and is associated with increased cardiovascular morbidity. However, adverse metabolic risk in primary aldosteronism extends beyond hypertension, with increased rates of insulin resistance, type 2 diabetes, and osteoporosis, which cannot be easily explained by aldosterone excess. METHODS: We performed mass spectrometry-based analysis of a 24-hour urine steroid metabolome in 174 newly diagnosed patients with primary aldosteronism (103 unilateral adenomas, 71 bilateral adrenal hyperplasias) in comparison to 162 healthy controls, 56 patients with endocrine inactive adrenal adenoma, 104 patients with mild subclinical, and 47 with clinically overt adrenal cortisol excess. We also analyzed the expression of cortisol-producing CYP11B1 and aldosterone-producing CYP11B2 enzymes in adenoma tissue from 57 patients with aldosterone-producing adenoma, employing immunohistochemistry with digital image analysis. RESULTS: Primary
As a service provider of microbial metabolomics, Microbiosci uses advanced instruments and the latest multivariate data analysis. Metabolomics aims to identify biomarkers, clarify the mode of action, and characterize products and processes. Microbioscis metabolomics solutions based on LC-MS, GC-MS and NMR fully meet the requirements of integrated metabolic profiling, sample throughput, compound identification, verification and quantification. In order to obtain metabolome data representing the physiological state of microorganisms, validated protocols and analyses are essential. The solutions provided by Mirobiosci are tailor-made for corresponding research purposes, combining innovative hardware with the versatility of data processing.. Microbiosci provides non-target metabolomics services. With its advanced facilities with experienced scientists, it will provide unparalleled expertise to assist researchers in non-target metabolomics analysis. In addition, Microbiosci can also provide a ...
As a service provider of microbial metabolomics, Microbiosci uses advanced instruments and the latest multivariate data analysis. Metabolomics aims to identify biomarkers, clarify the mode of action, and characterize products and processes. Microbioscis metabolomics solutions based on LC-MS, GC-MS and NMR fully meet the requirements of integrated metabolic profiling, sample throughput, compound identification, verification and quantification. In order to obtain metabolome data representing the physiological state of microorganisms, validated protocols and analyses are essential. The solutions provided by Mirobiosci are tailor-made for corresponding research purposes, combining innovative hardware with the versatility of data processing.. Microbiosci provides non-target metabolomics services. With its advanced facilities with experienced scientists, it will provide unparalleled expertise to assist researchers in non-target metabolomics analysis. In addition, Microbiosci can also provide a ...
A new approach for the comprehensive and quantitative analysis of charged metabolites by capillary electrophoresis mass spectrometry (CE-MS) is proposed. Metabolites are first separated by CE based on charge and size and then selectively detected using MS by monitoring over a large range of m/z values. This method enabled the determination of 352 metabolic standards and its utility was demonstrated in the analysis of 1692 metabolites from Bacillus subtilis extracts, revealing significant changes in metabolites during B. subtilis sporulation ...
Strong distinctions in metabolite concentrations were found with the quantification strategies applied. For dilutions ranging from 1:2 to 1:20 internal calibration and isotope dilution mass spectrometry were found to be most suitable for the compensation of matrix effects. Further more, the results showed that U13C4-aspartate as internal standard could be used for various amino acids in the chromatographic run. Using isotope dilution, where each metabolite has its own labelled analogue, the linear range of the calibration curve and the coefficient of correlation (up to 0.9999) were improved. The procedure of standard addition was only necessary for very low concentrated metabolites. To avoid this time consuming procedure, samples can as well be concentrated and measured via internal calibration instead. External calibration was sufficient for biological samples in dilutions of 1:20 or higher, because the measurements were hardly influenced by matrix effects. ...
A growing body of evidence has shown the intimate relationship between metabolomic profiles and insulin resistance (IR) in obese adults, while little is known about childhood obesity. In this review, we searched available papers addressing metabolomic profiles and IR in obese children from inception to February 2016 on MEDLINE, Web of Science, the Cochrane Library, ClinicalTrials.gov, and EMASE. HOMA-IR was applied as surrogate markers of IR and related metabolic disorders at both baseline and follow-up. To minimize selection bias, two investigators independently completed this work. After critical selection, 10 studies (including 2,673 participants) were eligible and evaluated by using QUADOMICS for quality assessment. Six of the 10 studies were classified as “high quality.” Then we generated all the metabolites identified in each study and found amino acid metabolism and lipid metabolism were the main affected metabolic pathways in obese children. Among identified metabolites, branched
Dendrobium officinale Kimura et Migo is a traditional and scarce medicinal orchid in China. Mycorrhizal fungi could supply nitrogen (N) to orchids for seed germination and seedling recruitment. However, the N transport mechanism between orchids and the fungus is poorly understand. Early studies found that the fungus MF23 (Mycena sp.) could promote the growth of D. officinale. To better dissect the molecular interactions involved in N transport between D. officinale and MF23, transcriptome and metabolome analyses were conducted on conventional and mycorrhizal cultivations of D. officinale. Moreover, validation tests were carried out in the greenhouse to measure net fluxes of NO3− and NH4+ of roots by a non-invasive micro-test technology (NMT), determine N assimilation enzyme activity by the ELISA, and analyze the expression level of differentially expressed genes (DEGs) of N transporters and DEGs involved in N metabolism by RT-qPCR. Combined transcriptome and metabolome analyses showed that MF23 may
Gas chromatography mass spectrometry (GC/MS)-based fecal metabonomics represents a powerful systems biology approach for elucidating metabolic biomarkers of lower gastrointestinal tract (GIT) diseases. Unlike metabolic profiling of fecal water, the profiling of complete fecal material remains under-explored. Here, a gas chromatography/time-of-flight mass spectrometry (GC/TOFMS) method was developed and validated for the global metabonomic profiling of human feces. Fecal and fecal water metabotypes were also profiled and compared. Additionally, the unclear influence of blood in stool on the fecal metabotype was investigated unprecedentedly. Eighty milligram of lyophilized feces was ultrasonicated with 1mL of methanol:water (8:2) for 30min, followed by centrifugation, drying of supernatant, oximation and trimethylsilylation for 45min. Lyophilized feces demonstrated a more comprehensive metabolic coverage than fecal water, based on the number of chromatographic peaks. Principal component analysis ...
Metabolomics is a comprehensive analysis of small molecules, or metabolites, in a system. Metabolomics is a hypothesis-generating experiment and offers an unbiased analysis of cell metabolism that can aid in the understanding of fundamental biological processes. Metabolomics is widely and broadly applicable in the biological sciences and has been used to study gene function, elucidate mechanisms of drug action, develop novel therapeutics, and to better understand disease states. This dissertation presents studies aimed at developing and determining the suitability of a mass spectrometry based untargeted metabolomics platform. Four chapters of original research are presented in this dissertation. The first chapter describes the development of a liquid chromatography-quadrupole-time-of-flight mass spectrometry metabolomics platform and details the various steps involved in a typical metabolomics experiment including metabolite extraction/sample preparation, metabolite separation and data ...
Neurochemical biomarkers are urgently sought in ALS. Metabolomic analysis of cerebrospinal fluid (CSF) using proton nuclear magnetic resonance ((1)H-NMR) spectroscopy is a highly sensitive method capable of revealing nervous system cellular pathology. The (1)H-NMR CSF metabolomic signature of ALS was sought in a longitudinal cohort. Six-monthly serial collection was performed in ALS patients across a range of clinical sub-types (n = 41) for up to two years, and in healthy controls at a single time-point (n = 14). A multivariate statistical approach, partial least squares discriminant analysis, was used to determine differences between the NMR spectra from patients and controls. Significantly predictive models were found using those patients with at least one years interval between recruitment and the second sample. Glucose, lactate, citric acid and, unexpectedly, ethanol were the discriminating metabolites elevated in ALS. It is concluded that (1)H-NMR captured the CSF metabolomic signature associated
TY - UNPB. T1 - VOCCluster: Untargeted Metabolomics Feature Clustering Approach for Clinical Breath Gas Chromatography-Mass Spectroscopy Data. AU - Alkhalifah, Yaser. AU - Phillips, Iain. AU - Soltoggio, Andrea. AU - Darnley, Kareen. AU - Nailon, William Henry. AU - McLaren, Duncan. AU - Eddleston, Michael. AU - Thomas, Paul AU - Salman, Dahlia. PY - 2019/2/18. Y1 - 2019/2/18. M3 - Working paper. T3 - ChemRxiv. BT - VOCCluster: Untargeted Metabolomics Feature Clustering Approach for Clinical Breath Gas Chromatography-Mass Spectroscopy Data. ER - ...
Lymphangioleiomyomatosis (LAM) is a rare multisystem disease almost exclusively affecting women which causes loss of lung function, lymphatic abnormalities and angiomyolipomas. LAM occurs sporadically and in people with tuberous sclerosis complex (TSC). Loss of TSC gene function leads to dysregulated mechanistic target of rapamycin (mTOR) signalling. As mTOR is a regulator of lipid and nucleotide synthesis, we hypothesised that the serum metabolome would be altered in LAM and related to disease severity and activity.Ultrahigh performance liquid chromatography-tandem mass spectroscopy was used to examine the serum metabolome of 79 closely phenotyped women with LAM, including 29 receiving treatment with an mTOR inhibitor and 43 healthy control women.Sphingolipid, fatty acid and phospholipid metabolites were associated with FEV1 in women with LAM (eg, behenoyl sphingomyelin adjusted (adj.) p=8.10 × 10-3). Those with higher disease-burden scores had abnormalities in fatty acid, phospholipid and ...
Liquid Chromatography Time-of-Flight Mass Spectrometry (LC-TOFMS) is an analytical platform that is widely used in the study of biological mixtures in the rapidly growing fields of proteomics and metabolomics. The development of statistical methods for the analysis of the very large data-sets that are typically produced in LC-TOFMS experiments is a very active area of research. However, the theoretical basis on which these methods are built is currently rather thin and as a result, inferences regarding the samples analysed are generally drawn in a somewhat qualitative fashion. This thesis concerns the development of a statistical formalism that can be used to describe and analyse the data produced in an LC-TOFMS experiment. This is done through the derivation of a number of probability distributions, each corresponding to a different level of approximation of the distribution of the empirically obtained data. Using such probabilistic models, statistically rigorous methods are developed and ...
To improve the treatment of patients with coronary heart disease (CHD), personalized treatments based on potential biomarkers could make a difference. To investigate if such potential biomarkers could be found for CHD inhomogeneous, we combined traditional Chinese medicine based diagnosis with untargeted and targeted metabolomics analyses. Shi and Xu patient subtype groups of CHD with angina pectoris were identified. Different metabolites including lipids, fatty acids and amino acids were further analyzed with targeted metabolomics and mapped to disease-related pathways. The long-chain unsaturated lipids ceramides metabolism, bile acid metabolism were differentially affected in the Xu subtype groups. While, Shi-subtype patients seemed to show inflammation, anomalous levels of bioactive phospholipids and antioxidant molecules. Furthermore, variations in the endothelial damage response and energy metabolism found based on ELISA analysis are the key divergence points between different CHD subtypes. The
Metabolomics is a large-scale approach to monitoring as many as possible of the compounds involved in cellular processes in a single assay to derive metabolic profiles. Compared with genomics or proteomics, metabolomics reflects changes in phenotype and therefore function. Collection of exhaled breath condensate (EBC) is a newly developed, noninvasive method that may allow clinicians and researchers to assess biochemical profiles in the alveolar lining fluid. The aims of this study are: (1)Collecting and metabolomic profiling of the EBCs from patients with COPD/bronchiectasis; (2) Comparing the profiles of these patients obtained during stable and acute exacerbation periods; (3) Comparing the profiles of these patients with and without Pseudomonas colonization/infection; (4) Correlation of EBC metabolomic profiles with clinical phenotypes, severity and outcomes of these patients ...
AIMS: This study compared serum metabolites of demented patients (Alzheimers disease and vascular dementia) and controls, and explored serum metabolite profiles of nondemented individuals 5 years preceding the diagnosis.. METHODS: Cognitively healthy participants were followed up for 5-20 years. Cognitive assessment, serum sampling, and diagnosis were completed every 5 years. Multivariate analyses were conducted on the metabolite profiles generated by gas chromatography/time-of-flight mass spectrometry.. RESULTS: A significant group separation was found between demented patients and controls, and between incident cases and controls. Metabolites that contributed in both analyses were 3,4-dihydroxybutanoic acid, docosapentaenoic acid, and uric acid.. CONCLUSIONS: Serum metabolite profiles are altered in demented patients, and detectable up to 5 years preceding the diagnosis. Blood sampling can make an important contribution to the early prediction of conversion to dementia.. ...
A joint metabolomic and lipidomic workflow is used to account for a potential effect of millimeter waves (MMW) around 60 GHz on biological tissues. For this purpose, HaCaT human keratinocytes were exposed at 60.4 GHz with an incident power density of 20 mW/cm², this value corresponding to the upper local exposure limit for general public in the context of a wide scale deployment of MMW technologies and devices. After a 24h-exposure, endo- and extracellular extracts were recovered to be submitted to an integrative UPLC-Q-Exactive metabolomic and lipidomic workflow. R-XCMS data processing and subsequent statistical treatment led to emphasize a limited number of altered features in lipidomic sequences and in intracellular metabolomic analyses, whatever the ionization mode (i.e 0 to 6 dysregulated features). Conversely, important dysregulations could be reported in extracellular metabolomic profiles with 111 and 99 frames being altered upon MMW exposure in positive and negative polarities, respectively.
This Application Note presents the profiling of green tea leaves as an example of one application of the metabolome analysis technique using LC/MS and GC/MS. A search of the substances believed to play roles in product quality was conducted, and a quality prediction model was constructed based on the results.
TY - JOUR. T1 - The free fatty acid metabolome in cerebral ischemia following human mesenchymal stem cell transplantation in rats. AU - Paik, Man Jeong. AU - Li, Wen Yu. AU - Ahn, Young Hwan. AU - Lee, Phil Hyu. AU - Choi, Sangdun. AU - Kim, Kyoung Rae. AU - Kim, Yong Man. AU - Bang, Oh Young. AU - Lee, Gwang. PY - 2009/4/1. Y1 - 2009/4/1. N2 - Background: Mesenchymal stem cells (MSCs) have the potential to promote brain repair and improve recovery following stroke. We investigated changes in free fatty acids (FFAs) following intravenous human MSC (hMSC) transplantation into rats that had undergone transient middle cerebral artery occlusion (MCAo). Methods: Rats were subjected to 2-hours MCAo, followed by intravenous transplantation of hMSC or phosphate-buffered saline (PBS) at one day after MCAo. All rats were sacrificed 5 days after MCAo. Metabolic profiling of free fatty acids (FFAs) level was assessed in plasma and brain from control rats (n = 8), PBS-treated MCAo rats (n = 6), and ...
Metabolomic Profiling of Neurospora crassa Fungi Using HILIC and Reversed-Phase LC-MS with high-resolution Ascentis Express HPLC columns.
Human milk is the ideal nutrition source for healthy infants during the first six months of life and a detailed characterisation of the composition of milk from mothers that deliver prematurely (|37 weeks gestation), and of how human milk changes during lactation, would benefit our understanding of the nutritional requirements of premature infants. Individual milk samples from mothers delivering prematurely and at term were collected. The human milk metabolome, established by nuclear magnetic resonance (NMR) spectroscopy, was influenced by gestational and lactation age. Metabolite profiling identified that levels of valine, leucine, betaine, and creatinine were increased in colostrum from term mothers compared with mature milk, while those of glutamate, caprylate, and caprate were increased in mature term milk compared with colostrum. Levels of oligosaccharides, citrate, and creatinine were increased in pre-term colostrum, while those of caprylate, caprate, valine, leucine, glutamate, and pantothenate
NAFLD is considered a hepatic manifestation of metabolic syndrome and is strongly associated with insulin resistance (15, 16). Our previous clinical trial contributed novel findings concerning the effects of long-term exercise on NAFLD in several aspects; the primary outcomes were IHTG reduction and weight loss. This present work focused on a large panel of metabolites in the serum after the exercise intervention, which was performed for the first time using an untargeted UPLC-Q-TOF/MS analysis based on a single serum sample. Making use of the full spectrum of analytes and metabolic profiling combined with pattern recognition techniques, we performed a metabolic analysis and clearly discriminated the characteristics of NAFLD patients with/without exercise. Among these identified altered metabolites, most belonged to glycerophospholipid and sphingolipids, which were associated with the glycerophospholipid and sphingolipid metabolic pathways, respectively.. Glycerophospholipids alone provided the ...
The mechanism behind the lowered postprandial insulin demand observed after rye bread intake compared to wheat bread is unknown. The aim of this study was to use the metabolomics approach to identify potential metabolites related to amino acid metabolism involved in this mechanism. A sourdough fermented endosperm rye bread (RB) and a standard white wheat bread (WB) as a reference were served in random order to 16 healthy subjects. Test bread portions contained 50 g available carbohydrate. In vitro hydrolysis of starch and protein were performed for both test breads. Blood samples for measuring glucose and insulin concentrations were drawn over 4 h and gastric emptying rate (GER) was measured. Changes in the plasma metabolome were investigated by applying a comprehensive two-dimensional gas chromatography coupled to time-of-flight mass spectrometry metabolomics platform (GC×GC-TOF-MS). Plasma insulin response to RB was lower than to WB at 30 min (P = 0.004), 45 min (P = 0.002) and 60 min (P | 0.001)
Glyoxylic acid or oxoacetic acid is an organic compound that is both an aldehyde and a carboxylic acid. It is an intermediate of the glyoxylate cycle, which enables certain organisms to convert fatty acids into carbohydrates.The conjugate base of gloxylic acid is known as glyoxylate. This compound is an intermediate of the glyoxylate cycle, which enables organisms, such as bacteria, fungi and plants to convert fatty acids into carbohydrates. Glyoxylate is the byproduct of the amidation process in biosynthesis of several amidated peptides. The glyoxylate cycle is a metabolic pathway occurring in plants, and several microorganisms, such as Pseudomonas aeruginosa and yeast ...
Creatine is an amino acid that occurs in vertebrate tissues and in urine. In muscle tissue, creatine generally occurs as phosphocreatine. Creatine is excreted as creatinine in the urine. Creatine functions as part of the cells energy shuttle. The high energy phosphate group of ATP is transferred to creatine to form phosphocreatine in the following reaction: Cr + ATP PCr + ADP. This reaction is reversibly catalyzed by creatine kinase. In the animal body creatine is synthesized mainly in the liver by the use of parts from three different amino acids - arginine, glycine, and methionine. 95% of it is later stored in the skeletal muscles, with the rest in the brain, heart, testes ...
Carnosine (beta-alanyl-L-histidine) is found exclusively in animal tissues. It is a dipeptide of the amino acids beta-alanine and histidine. Carnosine has the potential to suppress many of the biochemical changes (e.g., protein oxidation, glycation, AGE formation, and cross-linking) that accompany aging and associated pathologies (PMID 16804013 ). It is highly concentrated in muscle and brain tissues. Some autistics patients take it as a dietary supplement, and attribute an improvement in their condition to it. Supplemental carnosine may increase corticosterone levels. This may explain the hyperactivity seen in autistic subjects at higher doses. Carnosine also exhibits some antioxidant effects. The antioxidant mechanism of carnosine is attributed to its chelating effect against metal ions, superoxide dismutase (SOD)-like activity, ROS and free radicals scavenging ability (PMID 16406688 ...
PG(15:1(9Z)/18:0) is a phosphatidylglycerol. Phosphatidylglycerols consist of a glycerol 3-phosphate backbone esterified to either saturated or unsaturated fatty acids on carbons 1 and 2. As is the case with diacylglycerols, phosphatidylglycerols can have many different combinations of fatty acids of varying lengths and saturation attached to the C-1 and C-2 positions. PG(15:1(9Z)/18:0), in particular, consists of one 9Z-pentadecenoyl chain to the C-1 atom, and one octadecanoyl to the C-2 atom. In E. coli glycerophospholipid metabolism, phosphatidylglycerol is formed from phosphatidic acid (1,2-diacyl-sn-glycerol 3-phosphate) by a sequence of enzymatic reactions that proceeds via two intermediates, cytidine diphosphate diacylglycerol (CDP-diacylglycerol) and phosphatidylglycerophosphate (PGP, a phosphorylated phosphatidylglycerol). Phosphatidylglycerols, along with CDP-diacylglycerol, also serve as precursor molecules for the synthesis of cardiolipin, a phospholipid found in membranes ...
PG(16:0/18:0) is a phosphatidylglycerol. Phosphatidylglycerols consist of a glycerol 3-phosphate backbone esterified to either saturated or unsaturated fatty acids on carbons 1 and 2. As is the case with diacylglycerols, phosphatidylglycerols can have many different combinations of fatty acids of varying lengths and saturation attached to the C-1 and C-2 positions. PG(16:0/18:0), in particular, consists of one hexadecanoyl chain to the C-1 atom, and one octadecanoyl to the C-2 atom. In E. coli glycerophospholipid metabolism, phosphatidylglycerol is formed from phosphatidic acid (1,2-diacyl-sn-glycerol 3-phosphate) by a sequence of enzymatic reactions that proceeds via two intermediates, cytidine diphosphate diacylglycerol (CDP-diacylglycerol) and phosphatidylglycerophosphate (PGP, a phosphorylated phosphatidylglycerol). Phosphatidylglycerols, along with CDP-diacylglycerol, also serve as precursor molecules for the synthesis of cardiolipin, a phospholipid found in membranes ...
Bacillus subtilis (B. subtilis) has become widely accepted as a model organism for studies on Gram-positive bacteria. A deeper insight into the physiology of this prokaryote requires advanced studies of its metabolism. To provide a reliable basis for metabolome investigations, a validated experimental protocol is needed since the quality of the analytical sample and the final data are strongly affected by the sampling steps. To ensure that the sample analyzed precisely reflects the biological condition of interest, outside biases have to be avoided during sample preparation. Procedures for sampling, quenching, extraction of metabolites, cell disruption, as well as metabolite leakage were tested and optimized for B. subtilis. In particular the energy status of the bacterial cell, characterized by the adenylate energy charge, was used to evaluate sampling accuracy. Moreover, the results of the present study demonstrate that the cultivation medium can affect the efficiency of the developed sampling
TY - JOUR. T1 - The metabolome in finnish carriers of the MYBPC3-Q1061X mutation for hypertrophic cardiomyopathy. AU - Jørgenrud, Benedicte. AU - Jalanko, Mikko. AU - Heliö, Tiina. AU - Jääskeläinen, Pertti. AU - Laine, Mika. AU - Hilvo, Mika. AU - Nieminen, Markku S.. AU - Laakso, Markku. AU - Hyötyläinen, Tuulia. AU - Oresic, Matej. AU - Kuusisto, Johanna. N1 - CO:U Hormone Laboratory, Aker Hospital, Oslo University Hospital, Oslo, Norway CO:U Division of Women and Childrens Health, Department of Pediatric Research, Oslo University Hospital, Oslo, Norway CO:K Helsinki University Central Hospital, Department of Cardiology, Helsinki, Finland CO:K Kuopio University Hospital, Heart Center, Kuopio, Finland CO:K University of Eastern Finland, Kuopio University Hospital, Department of Medicine, Kuopio, Finland CO:U Steno Diabetes Center, Gentofte, Denmark CA2: BA3112 CA2: BA116 AU2: Hilvo, Mika AU2: Hyötyläinen, Tuulia AU2: Oresic, Matej ISI: MULTIDISCIPLINARY SCIENCES. PY - 2015. Y1 - ...
The composition and changes of the fungal population and of the metabolites present in grapes and in ferments of Vitis vinifera L. cv. Corvina, one of the major components of the Amarone musts, were dissected aiming at the identification of constant characteristics possibly influenced by the productive process. The fungal populations and metabolomic profiles were analyzed in three different vintages. 454-pyrosequencing on the ribosomal ITS1 region has been used to identify the fungal population present in Corvina grapes and fresh must. Samples were also subjected to metabolomics analysis measuring both free volatile compounds and glycosylated aroma precursors through an untargeted approach with comprehensive two-dimensional gas chromatography time-of-flight mass spectrometry. Albeit strongly dependent on the climate, both the mycobiota and metabolome of Corvina grapes and fresh musts show some characteristics recursive in different vintages. Such persistent characteristics are likely determined ...
TY - JOUR. T1 - Metabolomics analysis reveals distinct profiles of nonmuscle-invasive and muscle-invasive bladder cancer. AU - Sahu, Divya. AU - Lotan, Yair. AU - Wittmann, Bryan. AU - Neri, Bruce. AU - Hansel, Donna E.. N1 - Funding Information: This work was supported by the Case Western Reserve University/Cleveland Clinic CTSA Grant Number UL1 RR024989 from the National Center for Research Resources (NCRR) and a KL2 career development award (RR024990) to D.E.H., as well as a Prevent Cancer Foundation Fellowship Award to D.S. Publisher Copyright: © 2017 The Authors. Cancer Medicine published by John Wiley & Sons Ltd. Copyright: Copyright 2018 Elsevier B.V., All rights reserved.. PY - 2017/9. Y1 - 2017/9. N2 - Urothelial carcinoma is the most common form of bladder cancer, but pathway changes that occur with stage-wise progression have not been well defined. We used a metabolomics approach to identify potential metabolic pathways uniquely altered in normal urothelium, nonmuscle-invasive ...
Gentian spotted bleaching disease (GSBD), a novel disease of unknown etiology, affects Gentiana triflora plants that are cultivated as ornamental flowers in Japan. This disease leads to the production
TY - JOUR. T1 - Plasma Metabolomic Profile of Human Brain-Dead Organ Donors. AU - Dhaygude, K.. AU - Suominen, T.. AU - Krebs, R.. AU - Joo, S.. AU - Rouvinen, E.. AU - Velagapudi, V.. AU - Holmström, E.. AU - Nykänen, A.. AU - Syrjälä, S.. AU - Lemström, K.. PY - 2020/4. Y1 - 2020/4. N2 - PURPOSE: Profound metabolic and molecular changes triggered by solid organ donor brain death may significantly affect posttransplant graft function. However, the effects of brain death on transplanted organs are poorly understood and no clinical biomarker or targeted therapy is available to predict or prevent primary or late graft dysfunction, respectively. This study elaborates the plasma metabolomic profile of human brain-dead organ donors. METHODS: We compared plasma samples from 119 human brain-dead multi-organ donors, taken immediately before organ procurement, to samples from 48 healthy volunteers. We employed targeted ultra-performance liquid chromatography-tandem mass spectrometry to profile over ...
Sleep restriction and circadian clock disruption are associated with metabolic disorders such as obesity, insulin resistance, and diabetes. The metabolic pathways involved in human sleep, however, have yet to be investigated with the use of a metabolomics approach. Here we have used untargeted and targeted liquid chromatography (LC)/MS metabolomics to examine the effect of acute sleep deprivation on plasma metabolite rhythms. Twelve healthy young male subjects remained in controlled laboratory conditions with respect to environmental light, sleep, meals, and posture during a 24-h wake/sleep cycle, followed by 24 h of wakefulness. Two-hourly plasma samples collected over the 48 h period were analyzed by LC/MS. Principal component analysis revealed a clear time of day variation with a significant cosine fit during the wake/sleep cycle and during 24 h of wakefulness in untargeted and targeted analysis. Of 171 metabolites quantified, daily rhythms were observed in the majority (n = 109), with 78 of ...
TY - JOUR. T1 - Quantitative metabolomic analysis of the human cornea and aqueous humor. AU - Snytnikova, Olga A.. AU - Yanshole, Lyudmila V.. AU - Iskakov, Igor A.. AU - Yanshole, Vadim V.. AU - Chernykh, Valery V.. AU - Stepakov, Denis A.. AU - Novoselov, Vladimir P.. AU - Tsentalovich, Yuri P.. PY - 2017/12/1. Y1 - 2017/12/1. N2 - Introduction: Cornea is the outermost part of the eye supplied mostly by aqueous humor (AH). Therefore, the comparison of the metabolomic compositions of AH and cornea may help to determine which compounds are produced inside the cornea, and which penetrate into cornea from AH for intra-corneal consumption. Keratoconus (KC) is the most common form of the cornea dystrophy, and the analysis of KC corneas can unravel the metabolomic changes occurring in AH and cornea of KC patients. Objectives: The work is aimed at the determination of concentrations of a wide range of metabolites in the human cornea and AH, the comparison of the metabolomic profiles of cornea and AH, ...
Time of flight mass spectrometry identifies the elements of a compound by subjecting a sample of ions to a strong electrical field. Illuminating emerging analytical techniques in high-resolution mass spectrometry, Liquid Chromatography Time-of-Flight Mass Spectrometry shows readers how to analyze unknown and emerging contaminants-such as antibiotics, steroids, analgesics-using advanced mass spectrometry techniques. The text combines theoretical discussion with concrete examples, making it suitable for analytical chemists, environmental chemists, organic chemists, medicinal chemists, university research chemists, and graduate and post-doctorate students.. ...
Abstract. We present the characterization and application of a new gas chromatography time-of-flight mass spectrometry instrument (GC-TOFMS) for the quantitative analysis of halocarbons in air samples. The setup comprises three fundamental enhancements compared to our earlier work (Hoker et al., 2015): (1) full automation, (2) a mass resolving power R = m/Δm of the TOFMS (Tofwerk AG, Switzerland) increased up to 4000 and (3) a fully accessible data format of the mass spectrometric data. Automation in combination with the accessible data allowed an in-depth characterization of the instrument. Mass accuracy was found to be approximately 5 ppm in mean after automatic recalibration of the mass axis in each measurement. A TOFMS configuration giving R = 3500 was chosen to provide an R-to-sensitivity ratio suitable for our purpose. Calculated detection limits are as low as a few femtograms by means of the accurate mass information. The precision for substance quantification was 0.15 % at the best for ...
When undertaking research and critically judging the research of others with many variables, a key approach is use of multivariate data analysis. This online unit provides comprehensive skills essential for postgraduate students doing multivariate data analysis and for critically judging the research of others. We focus on the underlying principles you need to explore multivariate data sets and test hypotheses. In so doing, the unit provides you with an understanding of how multivariate research is designed, analysed and interpreted using statistics. The unit will cover the commonly used multivariate data analyses of principal components analysis, cluster analysis, discriminant functions analysis and non-metric multidimensional scaling, as well as parametric and permutational hypothesis testing techniques. Examples of data will be cross-disciplinary, enabling students from many disciplines to appreciate the techniques. Analyses will use the R statistical environment, furthering student skills in ...
TY - JOUR. T1 - Hypotaurine is an energy-saving hepatoprotective compound against ischemia-reperfusion injury of the rat liver. AU - Sakuragawa, Tadayuki. AU - Hishiki, Takako. AU - Ueno, Yuki. AU - Ikeda, Satsuki. AU - Soga, Tomoyoshi. AU - Yachie-Kinoshita, Ayako. AU - Kajimura, Mayumi. AU - Suematsu, Makoto. PY - 2010/3. Y1 - 2010/3. N2 - Metabolome analyses assisted by capillary electrophoresis-mass spectrometry (CE-MS) have allowed us to systematically grasp changes in small molecular metabolites under disease conditions. We applied CE-MS to mine out biomarkers in hepatic ischemia-reperfusion. Rat livers were exposed to ischemia by clamping of the portal inlet followed by reperfusion. Metabolomic profiling revealed that 1 contents of taurine in liver and plasma were significantly increased. Of interest is an elevation of hypotaurine, collectively suggesting significance of hypotaurine/taurine in post-ischemic responses. Considering the anti-oxidative capacity of hypotaurine, we examined if ...
[2] Sharma Subhash, Applied Multivariate Techniques, John Wiley & Sons, Inc. 1996. week Subject Reading #1 Aspects of Multivariate Analysis Matrix Algebra and Random Vectors [1] chapter University of Toronto. Gives readers the knowledge necessary to make proper interpretations and select appropriate Sharma, S, 1996, Applied Multivariate Techniques, John Wiley & Sons, New York Siswadi dan Suharjo, B, 1997, Analisis Eksplorasi Data Peubah 4.1 out of 5 stars 46. Applied Multivariate Statistical Analysis Paperback - March 13, 2015 by Wichern Johnson (Author) 3.9 out of 5 stars 35 ratings. ~~ Book Applied Multivariate Statistical Analysis 6th Edition ~~ Uploaded By Clive Cussler, applied multivariate statistical analysis 6th edition richard a johnson dean w wichern this market leader offers a readable introduction to the statistical analysis of multivariate observations gives readers the knowledge necessary to make proper June 14th, 2010 - Applied Multivariate Statistical Analysis
TY - JOUR. T1 - A longitudinal serum NMR-based metabolomics dataset of ischemia-reperfusion injury in adult cardiac surgery. AU - Maltesen, Raluca G. AU - Wimmer, Reinhard. AU - Rasmussen, Bodil Steen. PY - 2020/6/24. Y1 - 2020/6/24. N2 - Cardiovascular disease is the leading cause of death worldwide and cardiac surgery is a key treatment. This study explores metabolite changes as a consequence of ischemia-reperfusion due to cardiac surgery with the use of cardiopulmonary bypass (CPB). To describe the ischemia-reperfusion injury, metabolite changes were monitored in fifty patients before and after CPB at multiple time points. We describe a longitudinal metabolite dataset containing nearly 600 serum nuclear magnetic resonance (NMR) spectra obtained from samples collected simultaneously from the pulmonary artery (deoxygenated blood) and left atrium (oxygenated blood) before ischemia (pre-CPB), immediately after reperfusion (end-CPB), and the following 2, 4, 8, and 20 hours postoperatively. In ...
To date, no targeted therapies are available to treat triple negative breast cancer (TNBC), while other breast cancer subtypes are responsive to current therapeutic treatment. Metabolomics was conducted to reveal differences in two hormone receptor-negative TNBC cell lines and two hormone receptor-positive Luminal A cell lines. Studies were conducted in the presence and
TY - JOUR. T1 - Inflammation and Resolution Are Associated with Upregulation of Fatty Acid β-Oxidation in Zymosan-Induced Peritonitis. AU - Fujieda, Yusuke. AU - Manno, Atsushi. AU - Hayashi, Yasuhiro. AU - Rhodes, Nelson. AU - Guo, Lining. AU - Arita, Makoto. AU - Bamba, Takeshi. AU - Fukusaki, Eiichiro. PY - 2013/6/11. Y1 - 2013/6/11. N2 - Inflammation is a fundamental defensive response to harmful stimuli. However, it can cause damage if it does not subside. To avoid such damage, organisms have developed a mechanism called resolution of inflammation. Here we applied an untargeted metabolomics approach to a sterile and self-resolving animal model of acute inflammation, namely zymosan-induced peritonitis in mice, to examine the effect of inflammation and resolution on the metabolomic profiles. Significant and time-dependent changes in metabolite profiles after zymosan administration were observed in both peritoneal wash fluid (PWF) and plasma. These metabolomic changes correlated well with ...
Elevated post-prandial blood glucose during pregnancy has been associated with adverse pregnancy and offspring outcomes, such as maternal gestational diabetes and excessive foetal growth. The ROLO Study is a randomized controlled trial (RCT) investigating the effect of a low glycaemic index (GI) diet in pregnancy to prevent foetal macrosomia (birth weight | 4000 g). We described the impact of a low-GI diet on the maternal and feto-placental unit metabolism by studying how the ROLO intervention affected maternal and cord blood metabolomes. Fasting maternal plasma samples pre- and post-intervention of 51 pregnant women and 132 cord blood samples were measured with a targeted metabolomics approach using liquid-chromatography coupled to tandem mass spectrometry. The differences between RCT groups were explored via multivariate models with covariates correction. Significance was set at Bonferroni-corrected level of 0.05. A total of 262 metabolites species, sums and ratios were investigated. While no
Abstract, The Arabidopsis Book, 2008 Seed dormancy allows seeds to overcome periods that are unfavourable for seedling established and is therefore important for plant ecology and agriculture. Several processes are known to be involved in the induction of dormancy and in the switch from the dormant to the germinating state. The role of plant hormones, the different tissues and genes involved, including newly identified genes in dormancy and germination are described in this chapter, as well as the use transcriptome, proteome and metabolome analyses to study these mechanistically not well understood processes.
TY - JOUR. T1 - Metabolomics approach to reduce the Crabtree effect in continuous culture of Saccharomyces cerevisiae. AU - Imura, Makoto. AU - Iwakiri, Ryo. AU - Bamba, Takeshi. AU - Fukusaki, Eiichiro. PY - 2018/8/1. Y1 - 2018/8/1. N2 - The budding yeast Saccharomyces cerevisiae is an important microorganism for fermentation and the food industry. However, during production, S. cerevisiae commonly uses the ethanol fermentation pathway for glucose utilization if excess sugar is present, even in the presence of sufficient oxygen levels. This aerobic ethanol fermentation, referred to as the Crabtree effect, is one of the most significant reasons for low cell yield. To weaken the Crabtree effect in fed-batch and continuous culture, sugar flow should be limited. In addition, in continuous culture, the dilution rate must be reduced to avoid washing out cells. However, under such conditions, production speed might be sacrificed. It is difficult to solve this problem with the tradeoff between cell ...
Design and results We retrieved daily dietary information and assessed gut microbiota and metabolome in 153 individuals habitually following omnivore, vegetarian or vegan diets. The majority of vegan and vegetarian subjects and 30% of omnivore subjects had a high adherence to the MD. We were able to stratify individuals according to both diet type and adherence to the MD on the basis of their dietary patterns and associated microbiota. We detected significant associations between consumption of vegetable-based diets and increased levels of faecal short-chain fatty acids, Prevotella and some fibre-degrading Firmicutes, whose role in human gut warrants further research. Conversely, we detected higher urinary trimethylamine oxide levels in individuals with lower adherence to the MD. ...
EN] Introduction - Plants utilise vaious defence mechanisms against their potential biotic stressing agents such as viroids, viruses, bacteria or fungi and abiotic environmental challenges. Among them metabolic alteration is a common response in both compatible and incompatible plant-pathogen interactions. However, the identification of metabolic changes associated with defence response is not an easy task due to the complexity of the metabolome and the plant response. To address the problem of metabolic complexity, a metabolomics approach was employed in this study. Objective - To identify a wide range of pathogen (citrus exocortis viroid, CEVd, or Pseudomonas syringae pv. tomato)-induced metabolites of tomato using metabolomics. Methodology - Nuclear magnetic resonance (NMR) spectroscopy in combination with multivariate data analysis were performed to analyse the metabolic changes implicated in plant-pathogen interaction. Results - NMR-based metabolomics of crude extracts allowed the ...
This long-anticipated textbook is currently the most up-to-date resource on chemometrics and Multivariate Data Analysis (MVA). The field of chemometrics is the application
Law, W.S., Huang, P.Y., Li, S.F.Y., Ong, E.S., Ong, C.N., Sethi, S.K., Saw, S. (2009). Combination of1H nuclear magnetic resonance spectroscopy and liquid chromatography/mass spectrometry with pattern recognition techniques for evaluation of metabolic profile associated with albuminuria. Journal of Proteome Research 8 (4) : 1828-1837. [email protected] Repository. https://doi.org/10.1021/ ...
Huang, S.-M., Zuo, X., Li, J. J., Li, S. F. Y., Bay, B. H. and Ong, C. N. (2012), Metabolomics Studies Show Dose-Dependent Toxicity Induced by SiO2 Nanoparticles in MRC-5 Human Fetal Lung Fibroblasts. Advanced Healthcare Materials, 1: 779-784. doi: 10.1002/adhm.201200114 ...
TY - JOUR. T1 - Metabolite profiling of Arabidopsis inoculated with Alternaria brassicicola reveals that ascorbate reduces disease severity. AU - Botanga, Christopher J.. AU - Bethke, Gerit. AU - Chen, Zhong. AU - Gallie, Daniel R.. AU - Fiehn, Oliver. AU - Glazebrook, Jane. PY - 2012/12. Y1 - 2012/12. N2 - The interaction between the pathogenic ascomycete Alternaria brassicicola and Arabidopsis was investigated by metabolite profiling. The effect of A. brassicicola challenge on metabolite levels was substantial, with nearly 50% of detected compounds undergoing significant changes. Mutations blocking ethylene, jasmonic acid, or ethylene signaling had little effect on metabolite levels. The effects of altering levels of some metabolites were tested by exogenous application during A. brassicicola inoculation. Gamma amino-butyric acid (GABA) or xylitol promoted, while trehalose and ascorbate inhibited, disease severity. GABA promoted, and ascorbate strongly inhibited, fungal growth in culture. ...
Metabolic dysregulation is an early hallmark of neurodegenerative diseases including Alzheimers disease and age-related macular degeneration. Mapping metabolic adaptation with cellular resolution and tissue- wide context is crucial to define networks regulating neuronal survival, cell death progression, and immune cell response.. Computational Molecular Phenotyping (CMP) explores the amine metabolome (amino acids and amines). Technically, CMP metabolomics combines amine metabolite trapping, ultrathin microscopy (50-200 nm), immunodetection, pattern recognition, and clustering algorithms. Here we mapped the in situ distribution of over 30 core amine metabolites in retinal cells challenged by light-induced oxidative stress. Metabolomic profiles were phenotyped using ultrastructural, biochemical, and proteomic indices of oxidative stress.. CMP enabled precise visualization of ,30 metabolites in every retinal cell. CMP resolved and phenotyped metabolomic profiles to specific degeneration and ...
Zhao CG,Du HJ,Xu L,et al. Metabolomic analysis revealed glycylglycine accumulation in astrocytes after methionine enkephalin administration exhibiting neuron protective effects[J]. JOURNAL OF PHARMACEUTICAL AND BIOMEDICAL ANALYSIS,2015,115(0):48 ...
Opium poppy (Papaver somniferum) produces a diverse array of bioactive benzylisoquinoline alkaloids and has emerged as a model system to study plant alkaloid metabolism. The plant is cultivated as the only commercial source of the narcotic analgesics morphine and codeine, but also produces many other alkaloids including the antimicrobial agent sanguinarine. Modulations in plant secondary metabolism as a result of environmental perturbations are often associated with the altered regulation of other metabolic pathways. As a key component of our functional genomics platform for opium poppy we have used proton nuclear magnetic resonance (1H NMR) metabolomics to investigate the interplay between primary and secondary metabolism in cultured opium poppy cells treated with a fungal elicitor. Metabolite fingerprinting and compound-specific profiling showed the extensive reprogramming of primary metabolic pathways in association with the induction of alkaloid biosynthesis in response to elicitor treatment. Using
Methods Patients with sterile brain injury requiring intubation and ventilation on the intensive care unit were eligible for inclusion. Serial clinical and breath data were obtained three times a week, from admission up to a maximum of 10 days. Bronchial lavage for semiquantitative culture was collected immediately prior to breath sampling. Breath samples were collected in triplicate for off-line analysis by thermal-desorption/gas chromatography/time-of-flight mass spectrometry. Breath data were recorded as retention time/mass ion pairs, and analysed (pathogen present vs absent) by ANOVA-mean centre principal component analysis.. ...
Faecalibacterium prausnitzii is an anti-inflammatory commensal bacterium identified on the basis of human clinical data. The mechanisms underlying its beneficial effects are still unknown. Gnotobiotic mice harboring F. prausnitzii (A2-165) and Escherichia coli (K-12 JM105) were subjected to 2,4,6-trinitrobenzenesulfonic acid (TNBS)-induced acute colitis. The inflammatory colitis scores and a gas chromatography-time of flight (GC/TOF) mass spectrometry-based metabolomic profile were monitored in blood, ileum, cecum, colon, and feces in gnotobiotic mice. The potential anti-inflammatory metabolites were tested in vitro. We obtained stable E. coli and F. prausnitzii-diassociated mice in which E. coli primed the gastrointestinal tract (GIT), allowing a durable and stable establishment of F. prausnitzii. The disease activity index, histological scores, myeloperoxidase (MPO) activity, and serum cytokine levels were significantly lower in the presence of F. prausnitzii after TNBS challenge. The ...
Mostafa, Hamza Mohamed Amin and Mostafa, Arwa Mohamed Amin and Arif, Nor Hayati and Chin, Hoe Teh and Ibrahim, Baharudin (2014) Identification of Alcohol-Dependence Biomarkers in plasma by using Metabolomics Analysis. In: Asian Conference on Clinical Pharmacy, November 2014, Terengganu, Malaysia. Mostafa, Hamza Mohamed Amin and Mostafa, Arwa Mohamed Amin and Arif, Nor Hayati and Chin, Hoe Teh and Murugaiyah, Vikneswaran a/l and Ibrahim, Baharudin (2014) Metabolomic Analysis of Blood and Urine to identify Alcohol-Dependence Biomarkers. In: The Medical Journal of Penang Hospital-Penang Research Day, May 2014, Pulau Pinang, Malaysia. ...
We present novel data validating the use of various nicotine metabolite biomarkers in plasma and urine in relation to daily dose of nicotine. We have focused on low-level exposure in nonsmokers as would be most relevant to evaluating nonsmokers exposure to secondhand smoke.. The strongest correlation with nicotine dose was observed for the sum of the four or six of the major nicotine metabolites (Cot + Cot-G + 3HC + 3HC-G, with or without Nic + Nic-G) in a 24-hour urine collection. The correlation coefficient of 0.96 indicates that these biomarker measures account for most of the variance in the estimation of dose. Other combinations of urine metabolites including cotinine and 3HC also correlated exceedingly well with dose of nicotine.. Plasma concentrations of cotinine, 3HC, and the sum of Cot + 3HC were also highly correlated with nicotine dose, but not as strongly as 24-hour urine metabolite measures.. Interestingly, plasma 3HC and the sum of Cot + 3HC in plasma seemed to be more highly ...
Hydrophilic interaction liquid chromatography (HILIC), although not a new technique, has enjoyed a recent renaissance with the introduction of robust and reproducible stationary phases. It is consequently finding application in metabolomics studies, which have traditionally relied on the stability of reversed phases (RPs), since the biofluids analyzed are predominantly aqueous and thus contain many polar analytes. HILICs retention of those polar compounds and use of solvents readily compatible with mass spectrometry have seen its increasing adoption in studies of complex aqueous metabolomes. This review describes the stationary phases and their features. surveys HILIC-LC-MSs role in metabolomics experiments, discusses approaches to data extraction and analysis including multivariate analysis, and reviews the literature on HILIC MS applications in metabolomics. (C) 2009 Wiley Periodicals, Inc., Mass Spec Rev 29:671-684, 2010 ...
online An Introduction to Multivariate Statistical Analysis at the various mode word can nt make if the bladder of government has slightly fluid or is properly added to risk the project of the syntax in this operation. The many server of the rated other server occurs even eventually meaningful, Scribd to line in resection, and makes vivo extra or personal. This choices to the invalid, prostatic, Being, Apparently made time of the median prostatic MANAGER ID when the exquisite tensor has associated. This is the local M of Context because perforating deeper amounts data, with & and received departing. The online An Introduction to Multivariate Statistical Analysis (Wiley Series in Probability and Statistics) had in my factions, the course said my pressure. Obama was way of the Chinese information Republican eye; he cited out in Sanskrit of Video literature. Would the President try European of TREASON? If rather, why exists no one showing this? - Privacy This online An is remaining a country ...
Exploratory multivariate data analysis is studied and teached in a French-way since a long time in France. This course focuses on four essential and basic methods, those with the largest potential in terms of applications: principal component analysis (PCA) when variables are quantitative, correspondence analysis (CA) and multiple correspondence analysis (MCA) when variables are categorical and clustering. An extension to Multiple Factor Analysis (MFA) will give you the opportunity to analyse more complex dataset that are structured by groups.. We hope that with this course, the participant will be fully equipped (theory, examples, software) to confront multivariate real-life data. ...
Given the increasing complexity of modern HEP experiments, multivariate analysis techniques have proven indispensable to extract the maximum information content out of the data. At this workshop we will review recent developments on multivariate methods in TMVA (the Toolkit for Multivariate Data Analysis in ROOT), discuss user experience and feedback, and explain the use of TMVA by means of a hands-on tutorial. The workshop directly succeeds Phystat 2011 at CERN. EVO phone connection will be provided for remote participants.. The schedule leaves room for user feedback on TMVA, and ideas for new multivariate approaches or improvements on existing methods.. Please submit talk proposals to [email protected] If you wish to attend the workshop and/or TMVA tutorial please register as soon as possible, so that we can plan for an appropriate location at CERN. ...
AbeBooks.com: 001: Applied Multivariate Data Analysis: Regression and Experimental Design (Springer Texts in Statistics) (9780387976600) by J.D. Jobson and a great selection of similar New, Used and Collectible Books available now at great prices.
Fibromyalgia syndrome (FMS) is a common chronic pain syndrome characterized by widespread musculo-skeletal pain and associated with multiple other symptoms such as cognitive impairment, disrupted sleep and chronic fatigue. The American College of Rheumtology (ACR) first published criteria for FMS in 1990 [1] which emphasized chronic widespread musculo-skeletal pain (including pain in the axial skeleton) in the presence of pain on at least 11 of 18 specified tender point sites with digital palpation of 4 kg/cm2.. The 2010 ACR updated criteria for FMS [2] are applied in a 2-part, self-administered questionnaire and do not require a tender point assessment. The first part assesses the presence of pain at 19 sites on a body diagram (widespread pain index) and part 2 measures the symptom severity score (0-3) of 3 core symptoms (insomnia, fatigue and cognitive impairment) and an average score (0-3) for additional somatic symptoms. FMS is the most common cause of widespread or generalized ...
Human Metabolome Database. 27 September 2017. Retrieved 20 October 2017. Dynorphin A (1-8) is a fraction of Dynorphin A with ...
"Ethyl isopropyl ketone (HMDB0005846)". Human Metabolome Database. v t e. ...
"Pyrroloquinoline quinone (HMDB13636)". Human Metabolome Database. University of Alberta. Retrieved 19 July 2015. Enzymes ...
"3-Indolepropionic acid". Human Metabolome Database. University of Alberta. Retrieved 12 June 2018. Indole-3-propionate (IPA), a ...
"Human Metabolome Database". "Gene Regulation". www.gene-regulation.com. "JASPAR 2018: An open-access database of transcription ... metabolome, etc.) The Cancer Genome Atlas data collection Computational algorithms to extract drivers of cancer progression ...
Human Metabolome Database. 20 December 2017. Retrieved 25 December 2017. "3-Methyl-L-histidine". PubChem Compound. United ...
"Indoxyl sulfate". Human Metabolome Database - Version 4.0. 23 October 2017. Retrieved 15 November 2017. "Indoxyl sulfate". ... IPA metabolism diagram "3-Indolepropionic acid". Human Metabolome Database. University of Alberta. Retrieved 12 June 2018. ...
"Metabocard for Methyl (S)-2-Methylbutanoate". Human Metabolome Database. 2019-07-23. Retrieved 2020-09-30. Media related to 2- ... "Metabocard for (S)-2-Methylbutanoic acid". Human Metabolome Database. 2019-07-23. Retrieved 2020-09-30. " ...
"Metabocard for alpha-Bergamotene (HMDB0036678)". Human Metabolome Database. Koyasako, A.; Bernhard, R. A. (1983). "Volatile ...
"Metabocard for 4,4-Dimethylcholesta-8,14,24-trienol (HMDB01023)". Human Metabolome Database. February 2014. Lepesheva GI, ...
"Showing Protein Cytochrome P450 3A4 (HMDBP01018)". Human Metabolome Database. Retrieved 2017-08-05. CS1 maint: discouraged ...
Human Metabolome Database. 27 September 2017. Retrieved 20 October 2017. "Dynorphin A-(1-8): Biological activity". IUPHAR/BPS ...
"MSDS of D-pantothenic acid" (PDF). Human Metabolome Database. Retrieved 5 September 2014. Leenheer AP, Lambert WE, Bocxlaer JF ...
"Metabocard for isobutyric acid". Human Metabolome Database. 2020-03-26. Retrieved 2020-09-30. FAO (1998). "Specifications for ...
Enzyme 1.14.13.32 at KEGG "Showing Protein Cytochrome P450 3A4 (HMDBP01018)". Human Metabolome Database. Retrieved 2017-08-05. ...
IPA metabolism diagram "3-Indolepropionic acid". Human Metabolome Database. University of Alberta. Retrieved 12 June 2018. ...
Human Metabolome Database. 3.6. University of Alberta. 30 June 2013. Retrieved 12 December 2014. Hyperforin is found in ...
"Showing metabocard for 2-Fucosyllactose (HMDB02098)". Human Metabolome Database. Retrieved 19 October 2012. CS1 maint: ...
IPA metabolism diagram "3-Indolepropionic acid". Human Metabolome Database. University of Alberta. Retrieved 12 June 2018. ...
"AADC". Human Metabolome database. Retrieved 17 February 2015. Huang H, Li Y, Liang J, Finkelman FD (2018). "Molecular ...
"Octanol". Human Metabolome Database. Retrieved 29 December 2019.. ...
doi:10.1016/0926-6569(64)90182-8. "Metabocard for Malonic acid". Human Metabolome Database. 2020-03-13. Retrieved 2020-10-06. ...
"Choline". Human Metabolome Database. The Metabolomics Innovation Centre, University of Alberta, Edmonton, Canada. 17 August ...
"Metabocard for Valeric acid". Human Metabolome Database. 2020-04-23. Retrieved 2020-09-30. McDonald, Julie A.K.; Mullish, ...
Human Metabolome Database.. ...
"Pyruvate kinase isoenzyme type M2 (M2-PK)". Tumor metabolome database. Retrieved 2008-03-22. Overview of all the structural ...
Desmethylsertraline Desmethylvenlafaxine Didesmethylcitalopram Norfluoxetine "Desmethylcitalopram". Human Metabolome Database. ...
"Metabocard for Isovaleric acid". Human Metabolome Database. 2020-02-26. Retrieved 2020-09-30. Wilson, Jacob M.; Fitschen, Peter ...
Max Planck Institute of Molecular Plant Physiology in Golm Database (2007-07-19). "Glucose mass spectrum". Golm Metabolome ...
Lipoic acid "Metabocard for Lipoamide". Human Metabolome Database. J. M. Berg; J. L. Tymoczko, L. Stryer (2007). Biochemistry ( ...
NMR analysis of the CSF and plasma metabolome of rigorously matched amyotrophic lateral sclerosis, Parkinsons disease and ...
In other words, there is both an endogenous metabolome and an exogenous metabolome. The endogenous metabolome can be further ... the urine metabolome, the cerebrospinal fluid (CSF) metabolome and the saliva metabolome. These efforts have involved both ... The metabolome reflects the interaction between an organisms genome and its environment. As a result, an organisms metabolome ... The study of the metabolome is called metabolomics. The word metabolome appears to be a blending of the words "metabolite" and ...
Metabolome of chronic fatigue syndrome. Megan E. Roerink, Ewald M. Bronkhorst, and Jos W. M. van der Meer ...
The study of the tumor metabolism, also known as tumor metabolome describes the different characteristic metabolic changes in ... The characteristic attributes of the tumor metabolome are high glycolytic enzyme activities, the expression of the pyruvate ... Mazurek, S.; Eigenbrodt E. (March-April 2003). "The tumor metabolome". Anticancer Research. 23 (2A): 1149-1154. PMID 12820363. ...
metabolome synonyms, metabolome pronunciation, metabolome translation, English dictionary definition of metabolome. n. The ... metabolome. Also found in: Medical, Wikipedia.. Related to metabolome: metabolon. me·tab·o·lome. (mə-tăb′ə-lōm′). n.. The ... Metabolome - definition of metabolome by The Free Dictionary https://www.thefreedictionary.com/metabolome ... metabolome. (mɪˈtæbəˌləʊm) n. (Biology) the full complement of metabolites present in a cell, tissue, or organism in a ...
Metabolome in progression to Alzheimers disease.. Orešič M1, Hyötyläinen T, Herukka SK, Sysi-Aho M, Mattila I, Seppänan-Laakso ...
Sleep deprivation and the human metabolome. Sarah K. Davies, Joo Ern Ang, Victoria L. Revell, Ben Holmes, Anuska Mann, ... Sleep deprivation and the human metabolome. Sarah K. Davies, Joo Ern Ang, Victoria L. Revell, Ben Holmes, Anuska Mann, ... Effect of sleep deprivation on the human metabolome. Sarah K. Davies, Joo Ern Ang, Victoria L. Revell, Ben Holmes, Anuska Mann ...
Modeled closely after the Human Metabolome Database, the YMDB contains ,2000 metabolites with links to 995 differ … ... database containing detailed information about the metabolome of Saccharomyces cerevisiae. ... The Yeast Metabolome Database (YMDB, http://www.ymdb.ca) is a richly annotated metabolomic ... YMDB: the Yeast Metabolome Database Nucleic Acids Res. 2012 Jan;40(Database issue):D815-20. doi: 10.1093/nar/gkr916. Epub 2011 ...
Text mining Named entity recognition Yeast metabolome Electronic supplementary material. The online version of this article ( ... By coupling to ChemSpider, a major chemical database, we have identified structures for much of the reported metabolome and, ... Defining the reported yeast metabolome has created a useful resource for the yeast and metabolomics communities. It is ... The remaining molecular species required are the small endogenous molecules of the metabolome. While increasingly identified by ...
COPD Metabolome, Smoking Oxidants and Aberrant Ciliated Cell Function Principal Investigator: Ronald Crystal ... hypothesis that smoking-induced COPD is associated with a unique serum and lung metabolome and that subsets of this metabolome ... profiling and in vitro studies of human and murine airway epithelial cells to evaluate the link between the COPD metabolome and ...
Mining the Microbial Metabolome: Metabolomics-based Approaches to Infectious Diseases. Kyu Rhee, Weill Cornell Medical College ... Mining the Microbial Metabolome: Metabolomics-based Approaches to Infectious Diseases. Kyu Rhee, Weill Cornell Medical College ... In mice, we evaluated the capability of LC/MS-based metabolite profiling platform to broadly survey the plasma metabolome and ... Beecher compiled the first human metabolome in 2002 at Metabolic Analyses, and has been working toward the integration of ...
Classification schemes for the metabolome are a promising tool for understanding the chemical diversity of the metabolome. When ... A structure-based anatomy of the E.coli metabolome.. Nobeli I1, Ponstingl H, Krissinel EB, Thornton JM. ... The Escherichia coli metabolome has been characterised using the two-dimensional structures of 745 metabolites, obtained from ... Physicochemical properties of the metabolome have been calculated to provide an overview of this set of cognate ligands. A ...
Metabolome analysis is now recognized as a crucial component of functional genomic and systems biology investigations. ... download and read Metabolome Analyses: ebook online in PDF format for iPhone, iPad, Android, Computer and Mobile readers. ... Metabolome Analyses:. Strategies for Systems Biology. by Seetharaman Vaidyanathan(ed.) ; George G. Harrigan(ed.) ; Royston ... Metabolome analysis is now recognized as a crucial component of functional genomic and systems biology investigations. ...
To investigate genetic causes of metabolome variation, we measured th … ... Genetic basis of metabolome variation in yeast PLoS Genet. 2014 Mar 6;10(3):e1004142. doi: 10.1371/journal.pgen.1004142. ... To investigate genetic causes of metabolome variation, we measured the concentrations of 74 metabolites across ~ 100 segregants ...
Purchase Microbiome and Metabolome in Diagnosis, Therapy, and other Strategic Applications - 1st Edition. Print Book & E-Book. ... The Microbiome and Metabolome in Nonalcoholic Fatty Liver Disease. 28. The Microbiome and Metabolome in Alcoholic Liver Disease ... Microbiome and Metabolome in Diagnosis, Therapy, and other Strategic Applications 1st Edition. 0 star rating Write a review ... The Microbiome and Metabolome in Metabolic Syndrome. 23. The Gut Microbiota as a Therapeutic Approach for Obesity. 24. The Gut ...
Precision metabolome reprogramming for imprecision therapeutics in retinitis pigmentosa. Salvatore Caruso,1,6 Joseph Ryu,1 ... Future studies directed toward precision metabolome reprogramming may substantially advance the development of a gene agnostic ... we highlight cell-specific metabolome reprogramming as a promising non-gene-specific therapeutic avenue for inherited retinal ...
... Alessandra Meloni,1 Francesco Palmas,2 Luigi Barberini,3 Rossella ...
... activity and enzymatic discolouration were assessed for changes in the metabolome using... ... Metabolome changes induced over a 48 hour (h) period by tuber wounding (sliced transverse sections) were also assessed using ... Impacts on the metabolome of down-regulating polyphenol oxidase in potato tubers. ... Day length dependent restructuring of the leaf transcriptome and metabolome in potato genotypes with contrasting tuberization ...
"Microbiome-Metabolome Signature of Acute Kidney Injury" Metabolites 10, no. 4: 142. https://doi.org/10.3390/metabo10040142 ... Microbiome-Metabolome Signature of Acute Kidney Injury. Metabolites. 2020; 10(4):142. https://doi.org/10.3390/metabo10040142 ... Microbiome-Metabolome Signature of Acute Kidney Injury. Metabolites 2020, 10, 142. https://doi.org/10.3390/metabo10040142 ...
Metabolome and Microbiomic in Fecal Samples (MicroMet). The safety and scientific validity of this study is the responsibility ...
... ,. BioMed Research International,. vol. ... A. Jiye, J. Trygg, J. Gullberg et al., "Extraction and GC/MS analysis of the human blood plasma metabolome," Analytical ... A Nested Case-Control Study of Association between Metabolome and Hypertension Risk. ...
The Bovine Rumen Metabolome Database (RMDB) makes available tables containing the set of 246 ruminal fluid metabolites or ... metabolite species from the bovine ruminal fluid metabolome, along with their concentrations, rel. ... The Bovine Rumen Metabolome Database (RMDB) makes available tables containing the set of 246 ruminal fluid metabolites or ... metabolite species from the bovine ruminal fluid metabolome, along with their concentrations, related literature reference and ...
Please upgrade your browser to a newer version to get the best experience on Human Metabolome Database. ...
Citing the Human Metabolome Database:. *Wishart DS, Tzur D, Knox C, et al., HMDB: the Human Metabolome Database. Nucleic Acids ... Wishart DS, Jewison T, Guo AC, Wilson M, Knox C, et al., HMDB 3.0 - The Human Metabolome Database in 2013. Nucleic Acids Res. ... Wishart DS, Feunang YD, Marcu A, Guo AC, Liang K, et al., HMDB 4.0 - The Human Metabolome Database for 2018. Nucleic Acids Res ... Wishart DS, Knox C, Guo AC, et al., HMDB: a knowledgebase for the human metabolome. Nucleic Acids Res. 2009 37(Database issue): ...
Arginase impedes the resolution of colitis by altering the microbiome and metabolome. ... Arginase impedes the resolution of colitis by altering the microbiome and metabolome. ...
... and the fecal and urinary metabolome of non progressor (NP) and progressor (P) patients with immunoglobulin A nephropathy (IgAN ...
However, the tumor brain metabolome has never been analyzed.In our study we used direct flow injection/mass spectrometry (DI-MS ... However, the tumor brain metabolome has never been analyzed. In our study we used direct flow injection/mass spectrometry (DI- ... MS) analysis to establish the effects of the growth of lung cancer, pancreatic cancer, and sarcoma on the brain metabolome of ... analysis to establish the effects of the growth of lung cancer, pancreatic cancer, and sarcoma on the brain metabolome of ...
... the metabolome. Sitting at the interface between chemistry, biology, statistics and computer science; metabolomics presents ... demands that an ever wider variety of analytical technologies are employed to gain comprehensive coverage of the metabolome. ... Central to the global flow of metabolomic information are public metabolome databases, many of which have emerged in recent ... Contributions of any type in any area of metabolome-related bioinformatics are enthusiastically welcomed. Suggestions include: ...
Feijie Wang, Liang Sun, Qi Sun, Liming Liang, Xianfu Gao, Rongxia Li, An Pan, Huaixing Li, Yueyi Deng, Frank B. Hu, Jiarui Wu, Rong Zeng and Xu Lin ...
Zhang G, Yu D, Sang B, Feng J, Han L, Zhang X. Genome-Wide Analysis Reveals the Secondary Metabolome in Streptomyces kanasensis ... Zhang, G.; Yu, D.; Sang, B.; Feng, J.; Han, L.; Zhang, X. Genome-Wide Analysis Reveals the Secondary Metabolome in Streptomyces ... Genome-Wide Analysis Reveals the Secondary Metabolome in Streptomyces kanasensis ZX01. Guoqiang Zhang 1,2. ... "Genome-Wide Analysis Reveals the Secondary Metabolome in Streptomyces kanasensis ZX01." Genes 8, no. 12: 346. ...
  • Microbiome and Metabolome in Diagnosis, Therapy, and Other Strategic Applications is the first book to simultaneously cover the microbiome and the metabolome in relevant clinical conditions. (elsevier.com)
  • Cadmium and Selenate Exposure Affects the Honey Bee Microbiome and Metabolome, and Bee-Associated Bacteria Show Potential for Bioaccumulation. (americanelements.com)
  • Overall, our report shows that metal and metalloid exposure can affect the honey bee microbiome and metabolome and that strains of bee-associated bacteria can bioaccumulate these toxicants. (americanelements.com)
  • Here, we investigated the impact of selenate and cadmium exposure on the gut microbiome and metabolome of honey bees. (americanelements.com)
  • We found that exposure to these chemicals subtly altered the overall composition of the bees' microbiome and metabolome and that exposure to toxicants may negatively impact both host and microbe. (americanelements.com)
  • High-Resolution Longitudinal Dynamics of the Cystic Fibrosis Sputum Microbiome and Metabolome through Antibiotic Therapy. (escholarship.org)
  • The dynamics of the CF microbiome and metabolome over shorter time frames, however, remain poorly studied. (escholarship.org)
  • Here, we analyze paired microbiome and metabolome data from 594 sputum samples collected over 401 days from six adult CF subjects (subject mean = 179 days) through periods of clinical stability and 11 CF pulmonary exacerbations (CFPE). (escholarship.org)
  • This study revealed that the CF microbiome and metabolome of some subjects are dynamic through time. (escholarship.org)
  • Although antibiotic therapy is a principal treatment for CF lung disease, we have little understanding of how antibiotics affect the CF lung microbiome and metabolome and how much the community changes on daily timescales. (escholarship.org)
  • By analyzing 594 longitudinal CF sputum samples from six adult subjects, we show that the sputum microbiome and metabolome are dynamic. (escholarship.org)
  • We aimed to explore relationships between gut microbiome and metabolome to determine key insights into LOS development, impact, and recovery. (biomedcentral.com)
  • The metabolome represents a collection of exogenous chemicals and metabolites from cellular processes that may provide a proximal indication of physiological responses to environmental exposures, disease processes, and drug therapies. (thefreedictionary.com)
  • The sequences of metabolites created by a biological organization comprise their " Metabolome " (6, 7). (thefreedictionary.com)
  • The Escherichia coli metabolome has been characterised using the two-dimensional structures of 745 metabolites, obtained from the EcoCyc and KEGG databases. (nih.gov)
  • A library of fragments commonly found among these molecules has been employed to reveal the main constituents of metabolites, and to assist a broad classification of the metabolome into biochemically relevant classes. (nih.gov)
  • To investigate genetic causes of metabolome variation, we measured the concentrations of 74 metabolites across ~ 100 segregants from a Saccharomyces cerevisiae cross by liquid chromatography-tandem mass spectrometry. (nih.gov)
  • The Bovine Rumen Metabolome Database (RMDB) makes available tables containing the set of 246 ruminal fluid metabolites or metabolite species from the bovine ruminal fluid metabolome, along with their concentrations, related literature reference and links to their known diet associations. (chemspider.com)
  • The Human Metabolome Database (HMDB) is a freely available electronic database containing detailed information about small molecule metabolites found in the human body. (hmdb.ca)
  • dissect the relation between a boatload of genetic variants and individual human metabolomes-the complete collection of small-molecule metabolites in a biological sample. (sciencemag.org)
  • The Urine Metabolome Database (UMDB) (www.urinemetabolome.ca) containing detailed information on over 3000 metabolites has been launched following the comprehensive quantitative metabolome characterization of urine by scientists at the University of Alberta, Canada.1 The project is part of the on-going Human Metabolome Project launched in 2005 by Genome Canada and Genome Alberta, and has so far received $600 million in funding from the Canadian government. (chromatographyonline.com)
  • The Urine Metabolome Database (UMDB) (www.urinemetabolome.ca) containing detailed information on over 3000 metabolites has been launched following the comprehensive quantitative metabolome characterization of urine by scientists at the University of Alberta, Canada. (chromatographyonline.com)
  • The Human Metabolome Project 2 was set up to build a freely available database of all small molecule metabolites found in human biofluids. (chromatographyonline.com)
  • Prior to the analysis, we prepared an E. coli metabolome list of 727 metabolites reported in the literature. (rsc.org)
  • Together, all the metabolites within a system are known as the metabolome, and the study of all the metabolites in a sample (such as a cell, tissue or organism) is called metabolomics. (separationsnow.com)
  • In 2007, the Human Metabolome Database was released - an open access database containing detailed information on over 40,000 metabolites found in the body, and there are equivalent databases for yeast, E. coli , and Arabidopsis plants. (separationsnow.com)
  • Goals: i) Investigate how the pregnant woman's diet and microbial metabolites are reflected in her metabolome and that of the newborn child ii) Explore associations between maternal diet, newborn metabolome, immune parameters and allergy development. (chalmers.se)
  • To describe the genetic regulation of variation in the Arabidopsis thaliana metabolome and test our ability to integrate unknown metabolites into biochemical networks, we conducted a replicated metabolomic analysis on 210 lines of an Arabidopsis population that was previously used for targeted metabolite quantitative trait locus (QTL) and global expression QTL analysis. (plantcell.org)
  • Employing metabolome analysis, we demonstrated that the concentrations of intermediate metabolites produced by glycolysis and the pentose phosphate cycle in patients' erythrocytes were significantly decreased after administration of ribavirin. (medsci.org)
  • Launched in January 2005, The Human Metabolome Project (HMP) was a multi-university, multi-investigator project led by Dr David Wishart of the University of Alberta which catalogued all of the known metabolites in human tissues and biofluids. (technologynetworks.com)
  • The HMP produced the first draft of the human metabolome in January 2007, that consisted of a database of approximately 2,500 metabolites, 1,200 drugs and 3,500 food components 13 . (technologynetworks.com)
  • Specifically, experimental problems arise from the technical difficulty of sampling rapidly enough to avoid artifacts for metabolites with fast turnover rate, and from the heterogeneous nature of the species that compose the metabolome, which calls for complex and thus error prone sample preparation procedures and diversified analytical platforms. (biomedcentral.com)
  • b) to establish a comprehensive set of chemical standards for soybean metabolites moving toward construction of a metabolome map with a focus on seed and drought effects on seed development and, c) to compile a database linking proteomic and metabolite information and associate this information to value-added soybean traits and markers for assisted breeding. (umsystem.edu)
  • Using transcriptome and metabolome analysis, we investigated the differentially expressed genes and metabolites between the two groups, and found three common pathways related to food habit domestication, including retinol metabolism, glycerolipid metabolism, and biosynthesis of unsaturated fatty acids pathways. (researchsquare.com)
  • The study of the metabolome is called metabolomics. (wikipedia.org)
  • Metabolomics is a new area of research that focuses on metabolome profiles and provides important mechanistic insights into various human diseases, including cancer, neurodegenerative diseases, and aging. (frontiersin.org)
  • 2. The Human Metabolome Project www.metabolomics.ca (Last Accessed 24/09/2013). (chromatographyonline.com)
  • Here we present the Metabolome Tomato Database (MoTo DB), a metabolite database dedicated to liquid chromatography-mass spectrometry (LC-MS)- based metabolomics of tomato fruit ( Solanum lycopersicum ). (plantphysiol.org)
  • The new BIOCRATES AbsoluteIDQ p400 HR kit is the industry's first comprehensive kit for targeted metabolomics analysis, designed to help researchers efficiently unlock the complexity of the metabolome. (spectroscopynow.com)
  • Unexpectedly, integrated transcriptional and metabolomics studies uncovered a major reprogramming of the secondary metabolome of two Nostoc strains at high culture density and a governing effect of extracellular signals in this process. (asm.org)
  • Considering the physicochemical diversity of the metabolome, untargeted metabolomics will inevitably discriminate against certain compound classes. (diva-portal.org)
  • Contrary to the main steps of a typical liquid chromatography-mass spectrometry (LC-MS) metabolomics workflow, such as metabolite extraction, the sample reconstitution step has not been optimized for maximal metabolome coverage. (diva-portal.org)
  • The aim of this study was to evaluate the impact of the sample reconstitution solvent composition on metabolome coverage in untargeted LCMS metabolomics. (diva-portal.org)
  • These findings show that the sample reconstitution step has a clear impact on the metabolome coverage of MeOH extracted biological samples, highlighting the importance of the reconstitution solvent composition for untargeted discovery metabolomics. (diva-portal.org)
  • We envision that use of anNET in labs working on quantitative metabolomics will provide the systems biology and metabolic engineering communities with a mean to proof the quality of metabolome data sets and with all further benefits of the NET analysis approach. (biomedcentral.com)
  • Targeted metabolomics showed that NR elevated the muscle NAD+ metabolome, evident by increased nicotinic acid adenine dinucleotide and nicotinamide clearance products. (longecity.org)
  • We have set-up a robust quantitative metabolomics platform that allows the analysis of 'snapshot' metabolomes. (metabolomicscentre.nl)
  • The contributing authors are world leaders in this field and they present an unambiguous case for pursuing metabolome analysis as a means to attain a systems level understanding of complex biological systems. (ebooks.com)
  • George Crowley, from New York University in New York City, and colleagues quantified the metabolome of serum for never-smoking, male, WTC-exposed firefighters with normal pre-9/11 lung function, drawn within six months after 9/11. (thefreedictionary.com)
  • We have established a pan-European reference metabolome for urine and serum of healthy children and gathered critical resources not previously available for future investigations into the influence of the metabolome on child health. (springer.com)
  • Long-term leisure-time physical activity and serum metabolome. (environment-health.ac.uk)
  • Serum metabolome was quantified by nuclear magnetic resonance spectroscopy. (environment-health.ac.uk)
  • Apolipoprotein-E-deficient mice were fed for 24 weeks either high-fat/cholesterol diet alone (control, HFC) or high-fat/cholesterol in conjunction with one of three dietary interventions, as follows: plant sterol ester (PSE), oat β-glucan (OBG) and bile salt hydrolase-active Lactobacillus reuteri APC 2587 (BSH), or the drug atorvastatin (STAT). The gut microbiome composition was then investigated, in addition to the host fecal and serum metabolome. (biomedcentral.com)
  • To investigate the potential benefits of the MD in this cross-sectional survey, we assessed the gut microbiota and metabolome in a cohort of Italian individuals in relation to their habitual diets. (bmj.com)
  • Design and results We retrieved daily dietary information and assessed gut microbiota and metabolome in 153 individuals habitually following omnivore, vegetarian or vegan diets. (bmj.com)
  • In the current study, we determined whether celecoxib treatment altered the luminal microbiota and metabolome in association with reducing intestinal polyp burden in mice. (aacrjournals.org)
  • Taken together, these results demonstrate that celecoxib alters the luminal microbiota and metabolome along with reducing epithelial cell proliferation in mice. (aacrjournals.org)
  • This review summarizes recent findings of how alcohol-induced alterations of gut microbiota and metabolome, and discusses the mechanistic link between gastrointestinal dyshomeostasis and alcoholic liver injury. (wineinformationcouncil.eu)
  • The widespread use of NMR for "classical" metabolic studies, along with its exceptional capacity to handle complex metabolite mixtures is likely the reason why NMR was one of the first technologies to be widely adopted for routine metabolome measurements. (wikipedia.org)
  • The study of the tumor metabolism, also known as tumor metabolome describes the different characteristic metabolic changes in tumor cells. (wikipedia.org)
  • Navy Beans Impact the Stool Metabolome and Metabolic Pathways for Colon Health in Cancer Survivors. (thefreedictionary.com)
  • Other scientists who contributed to the study, entitled 'Metabolic changes of the blood metabolome after a date fruit challenge,' were Sweety Mathew, Joel Malek, Anna Halama, Sara Abdul Kader, Minkyung Choi and Robert Mohney. (thefreedictionary.com)
  • The metabolome was evaluated using the lactulose breath test (LBT) and metabolic profiling in urine using mass spectrometry. (medworm.com)
  • Taking full advantage of the HRAM capabilities of industry-leading Thermo Scientific Orbitrap mass spectrometry and BIOCRATES' metabolic phenotyping technologies, the solution enables multiplexed, quantitative and standardized metabolome analysis at a substantial level of depth. (spectroscopynow.com)
  • Here, we investigated whether we can predict the impact of specific genes of known or unknown function on this metabolic network by combining whole transcriptome and partial exo-metabolome analysis. (nofima.no)
  • The findings persisted after adjustment for body mass index.CONCLUSIONS: The numerous differences found between persistently physically active and inactive individuals in the circulating metabolome together indicate better metabolic health in the physically active than in inactive individuals. (environment-health.ac.uk)
  • The urinary adrenal steroid metabolome provides a tool for metabolic risk stratification and may identify those patients who can benefit from definitive treatment of cortisol excess, e.g. tumour removal in patients with MACE. (endocrine-abstracts.org)
  • According to Wong's study, the metabolite levels of de-identified patient urines were comparable with those of the published references from the Human Metabolome Database. (thefreedictionary.com)
  • Here we present a novel tool to automatically identify metabolite names in the literature, and associate structures where possible, to define the reported yeast metabolome. (springer.com)
  • The metabolite recognition tool has been applied to the literature covering an important model organism, the yeast Saccharomyces cerevisiae , to define its reported metabolome. (springer.com)
  • Our goal now is to extend the metabolite panel to get an even better overview of the human metabolome," she adds. (natureasia.com)
  • For the description of the metabolome of an organism, the development of common metabolite databases is of utmost importance. (plantphysiol.org)
  • Here, foliar tissue of six water-deficit stressed P. balsamifera genotypes was analysed for variation in the metabolome in response to drought and time of day by using an untargeted metabolite profiling technique, gas chromatography/mass-spectrometry (GC/MS). (biomedcentral.com)
  • Metabolome alpha-diversity was higher during CFPE than during stability (LME P = 0.0085), but no consistent metabolite signatures of CFPE across subjects were identified. (escholarship.org)
  • 2015), using plasma metabolome analysis, identified potential biomarkers of fatigue in male rats. (thefreedictionary.com)
  • The past decade of research in cancer metabolism reveals the untapped value of exploring human metabolome for the discovery of novel therapeutic and diagnostic biomarkers for human cancers and other diseases. (aacrjournals.org)
  • Estima) genetically modified to reduce polyphenol oxidase (PPO) activity and enzymatic discolouration were assessed for changes in the metabolome using Liquid Chromatography-Mass Spectrometry (LC-MS) and Gas Chromatography (GC)-MS. Metabolome changes induced over a 48 hour (h) period by tuber wounding (sliced transverse sections) were also assessed using two PPO antisense lines (asPPO) and a wild-type (WT) control. (springer.com)
  • In our study we used direct flow injection/mass spectrometry (DI-MS) analysis to establish the effects of the growth of lung cancer, pancreatic cancer, and sarcoma on the brain metabolome of TumorGraft™ mice. (frontiersin.org)
  • The techniques available for carrying out mass spectrometry-based profiling of metabolomes are discussed using the analysis of extracts from trypanosomes to illustrate various points regarding methods of separation and mass spectrometric analysis. (strath.ac.uk)
  • The existing literature on applications of mass spectrometry to the profiling of parasite metabolomes is reviewed. (strath.ac.uk)
  • For example, chemical diversity demands that an ever wider variety of analytical technologies are employed to gain comprehensive coverage of the metabolome. (frontiersin.org)
  • These results demonstrate the good potential of the MV interface for enhancing the coverage of the metabolome. (metabolomicscentre.nl)
  • Classification schemes for the metabolome are a promising tool for understanding the chemical diversity of the metabolome. (nih.gov)
  • Conclusions IBS symptoms are linked to FODMAP content and associated with alterations in the metabolome. (bmj.com)
  • Mutations in ocd1 caused dramatic alterations in the metabolome in the endosperm. (plantcell.org)
  • To test if multi-cellular organisms also display natural genetic variation in the stochastic link between genotype and phenotype, we measured the metabolome, growth and defense metabolism within an Arabidopsis RIL population and mapped quantitative trait loci. (prolekare.cz)
  • Pathway analysis of the transcriptome and metabolome revealed specific genotypic responses with respect to primary sugar accumulation, citric acid metabolism, and raffinose family oligosaccharide biosynthesis. (biomedcentral.com)
  • In this study we report the changes observed in the primary metabolism of E. grandis bark during two contrasting seasons in Brazil, summer (wet) and winter (dry), through the combination of transcripts (RT-qPCR), proteome (2-DE gels) and metabolome (GC-MS) analysis, in an integrated manner. (biomedcentral.com)
  • The Yeast Metabolome Database (YMDB, http://www.ymdb.ca) is a richly annotated 'metabolomic' database containing detailed information about the metabolome of Saccharomyces cerevisiae. (nih.gov)
  • The term "metabolome" was first used in 1998 and was likely coined to match with existing biological terms referring to the complete set of genes (the genome), the complete set of proteins (the proteome) and the complete set of transcripts (the transcriptome). (wikipedia.org)
  • This study describes how one pectin-modifying enzyme, PECTIN ACETYLESTERASE 9 (PAE9), affects the Arabidopsis thaliana transcriptome, secondary metabolome and aphid performance. (plantphysiol.org)
  • In order to understand the interaction between the transcriptome and metabolome, an integrated analysis of the drought-responsive transcriptome and the metabolome was performed. (biomedcentral.com)
  • One P. balsamifera genotype, AP-1006, demonstrated a lack of congruence between the magnitude of the drought transcriptome response and the magnitude of the metabolome response. (biomedcentral.com)
  • The endogenous metabolome can be further subdivided to include a "primary" and a "secondary" metabolome (particularly when referring to plant or microbial metabolomes). (wikipedia.org)
  • This paper focuses on the microbial aspects of analyzing comprehensive metabolomes, and demonstrates that metabolomes can be analyzed reliably. (metabolomicscentre.nl)
  • Associations among Wine Grape Microbiome, Metabolome, and Fermentation Behavior Suggest Microbial Contribution to Regional Wine Characteristics. (escholarship.org)
  • Zhang, X. Genome-Wide Analysis Reveals the Secondary Metabolome in Streptomyces kanasensis ZX01. (mdpi.com)
  • Zhang G, Yu D, Sang B, Feng J, Han L, Zhang X. Genome-Wide Analysis Reveals the Secondary Metabolome in Streptomyces kanasensis ZX01. (mdpi.com)
  • Customers now have a standardized approach to quantitative and reproducible sample analysis to help them gain a deeper understanding of the metabolome. (spectroscopynow.com)
  • Furthermore, not only the actual measurement but also the subsequent interpretation of quantitative metabolome data to obtain mechanistic insights is still lacking behind the current expectations. (biomedcentral.com)
  • Our user-friendly and generalized implementation of the NET analysis method in the software anNET allows users to rapidly integrate quantitative metabolome data obtained from virtually any organism. (biomedcentral.com)
  • In brief, there is a pressing need for computational methods that allow extracting mechanistic insights from quantitative metabolome data. (biomedcentral.com)
  • Our goal with fully characterizing the human urine metabolome was to establish a baseline of what would normally be found (and at what concentrations) in a healthy adult urine specimen. (chromatographyonline.com)
  • Urine steroid metabolome analysis identified specific signatures that correlated with the degree of cortisol excess and clinical outcomes. (endocrine-abstracts.org)
  • We demonstrate the application of anNET with three published Escherichia coli metabolome data sets. (biomedcentral.com)
  • Comparative Metabolome Profiling Using Two Dimensional Thin Layer Chromatography (2DTLC). (ebooks.com)
  • Mathew AV, Zeng L, Byun J, Pennathur S (2015) Metabolomic Profiling of Arginine Metabolome Links Altered Methylation to Chronic Kidney Disease Accelerated Atherosclerosis. (omicsonline.org)
  • High-throughput metabolome profiling by flow. (csic.es)
  • MS -based metabolome profiling remains the method of choice in systems biology approaches 6 . (technologynetworks.com)
  • Metabolome profiling showed significant changes in plasma levels of amino acids, biogenic amines, acylcarnitines, and lipids. (asnjournals.org)
  • The metabolome reflects the interaction between an organism's genome and its environment. (wikipedia.org)
  • Going forward, we can expect more investigations of the interplay between genome and metabolome. (sciencemag.org)
  • 1 The project is part of the on-going Human Metabolome Project launched in 2005 by Genome Canada and Genome Alberta, and has so far received $600 million in funding from the Canadian government. (chromatographyonline.com)
  • When asked by The Column about the importance of the Human Metabolome Project, Wishat said: "At some level, we liken the work we've been doing as similar to what was done for the Human Genome Project. (chromatographyonline.com)
  • This is due to the fact that the metabolome does not have a direct link to the genome such as mRNA or proteins. (biomedcentral.com)
  • Combined Metabolome and Lipidome analyses for in-depth characterization of lipid accumulation in the DHA producing Aurantiochytrium sp. (sintef.no)
  • The metabolome refers to the complete set of small-molecule chemicals found within a biological sample. (wikipedia.org)
  • However, large-scale metabolome studies in children combining analyses of these biological fluids are lacking. (springer.com)
  • Objective To gain mechanistic insights, we compared effects of low fermentable oligosaccharides, disaccharides and monosaccharides and polyols (FODMAP) and high FODMAP diets on symptoms, the metabolome and the microbiome of patients with IBS. (medworm.com)
  • Just as different species have different genetic compositions, they also have different metabolomes. (separationsnow.com)
  • Knowledge of the rhizosphere metabolome, its wealth of novel antibiotics, and its role in natural disease suppression has been limited by the fact that soil is the most difficult matrix from which to isolate antibiotics due to its complexity and variation in chemical and physical properties. (chromatographyonline.com)
  • Significant variation in the metabolome was observed in response the imposition of water-deficit stress. (biomedcentral.com)
  • We investigated metabolomes of 25 mitochondrial myopathy or ataxias patients, 16 unaffected carriers, six IBM and 15 non‐mitochondrial neuromuscular disease ( NMD ) patients and 30 matched controls. (embopress.org)
  • In other words, there is both an endogenous metabolome and an exogenous metabolome. (wikipedia.org)
  • The remaining molecular species required are the small endogenous molecules of the metabolome. (springer.com)
  • However, the tumor brain metabolome has never been analyzed. (frontiersin.org)
  • By coupling to ChemSpider, a major chemical database, we have identified structures for much of the reported metabolome and, where structure identification fails, been able to suggest extensions to ChemSpider. (springer.com)
  • High-resolution MS, isotope abundance ratios, MS/MS, the Human Metabolome database, the METLIN database, a literature search, and standard comparisons were employed to identify ion structures. (thefreedictionary.com)
  • Please upgrade your browser to a newer version to get the best experience on Human Metabolome Database. (hmdb.ca)
  • Afmid mice did not present statistically significant differences in their volatile faecal metabolome when compared to their respective WT littermates. (open.ac.uk)
  • HMDB: a knowledgebase for the human metabolome. (hmdb.ca)
  • A structure-based anatomy of the E.coli metabolome. (nih.gov)
  • This study using simultaneous LC-MS/MS measurements of 15 adrenal steroids in plasma establishes distinct steroid metabolome profiles that might be useful as a test for CS. (thefreedictionary.com)
  • As a result, an organism's metabolome can serve as an excellent probe of its phenotype (i.e. the product of its genotype and its environment). (wikipedia.org)
  • To encourage public awareness, discussion and collaboration at this important scientific frontier, this Frontiers Research Topic therefore aims to provide an encyclopedic reference to the current state of the art in metabolome-related bioinformatics. (frontiersin.org)
  • Contributions of any type in any area of metabolome-related bioinformatics are enthusiastically welcomed. (frontiersin.org)
  • Physicochemical properties of the metabolome have been calculated to provide an overview of this set of cognate ligands. (nih.gov)
  • Phenazines, 2,4-diacetylphloroglucinol (DAPG), pyrrolnitrin, and pyoluteorin are some of the most common of these antibiotics, but they are just a small fraction of the thousands that comprise the rhizosphere metabolome. (chromatographyonline.com)
  • Some of the more significant early papers on metabolome analysis are listed in the references below. (wikipedia.org)