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Metabolomics Studies in Psoriatic Disease: A Review

John Koussiouris, Nikita Looby, Melanie Anderson, Vathany Kulasingam, Vinod Chandran
2021 Metabolites  
In this review, we summarize the studies that have examined endogenous metabolites in patients with psoriasis and/or psoriatic arthritis using nuclear magnetic resonance (NMR) or mass spectrometry (MS)  ...  Index in Web of Science.  ...  Conflicts of Interest: The authors declare no conflict of interest.  ... 
doi:10.3390/metabo11060375 fatcat:unsoonqs2jglph7einbbfpy57i

Progress in Metabolomics Standardisation and its Significance in Future Clinical Laboratory Medicine

Daniel A Dias, Therese Koal
2016 EJIFCC  
Today, the technology of 'targeted' based metabolomics is pivotal in the clinical analysis workflow as it provides information of metabolic phenotyping (metabotypes) by enhancing our understanding of metabolism  ...  This review is focused on surveying and providing a gap analysis on metabolic phenotyping with a focus on targeted based metabolomics from an instrumental, technical point-of-view discussing the state-of-the-art  ...  Liquid Chromatography -Mass Spectrometry (LC-MS) Liquid chromatography-mass spectrometry (LC-MS) is a complimentary analytical platform used to identify metabolites that generally do not require chemical  ... 
pmid:28149265 pmcid:PMC5282916 fatcat:rcieco5wlzf3bd3bq2wdbrfqey

IDEOM: an Excel interface for analysis of LC–MS-based metabolomics data

Darren J. Creek, Andris Jankevics, Karl E. V. Burgess, Rainer Breitling, Michael P. Barrett
2012 Computer applications in the biosciences : CABIOS  
The application of emerging metabolomics technologies to the comprehensive investigation of cellular biochemistry has been limited by bottlenecks in data processing, particularly noise filtering and metabolite  ...  generated by liquid chromatographymass spectrometry (LC-MS) platforms.  ...  Example datasets were provided by the Scottish Metabolomics Facility, funded by the Scottish Universities Life Sciences Alliance (SULSA).  ... 
doi:10.1093/bioinformatics/bts069 pmid:22308147 fatcat:2iusi5zibnhcfomfcrzloqirqe

Proteomics, lipidomics, metabolomics: a mass spectrometry tutorial from a computer scientist's point of view

Rob Smith, Andrew D Mathis, Dan Ventura, John T Prince
2014 BMC Bioinformatics  
Despite interim successes, many data interpretation problems in mass spectrometry are still challenging.  ...  Results: This paper provides an introduction to the burgeoning field of computational mass spectrometry.  ...  Methods include: • LC-MS -mass spectrometry coupled to liquid chromatography.  ... 
doi:10.1186/1471-2105-15-s7-s9 pmid:25078324 pmcid:PMC4110734 fatcat:lit2fe3omvevjoso5esvmuhlau

Targeted Metabolomics

Lee D. Roberts, Amanda L. Souza, Robert E. Gerszten, Clary B. Clish
2012 Current Protocols in Molecular Biology  
Specifically, protocols for the analysis of these metabolites using liquid chromatography-mass spectrometry-based targeted metabolomics experiments is discussed.  ...  Metabolomics aims to measure a wide breadth of small molecules in the context of physiological stimuli or in disease states.  ...  magnetic resonance ( 13 C-NMR) spectroscopy, gas chromatography-mass spectrometry (GC-MS), gas chromatography-flame ionization detection (GC-FID), direct infusion-mass spectrometry (DI-MS) and liquid  ... 
doi:10.1002/0471142727.mb3002s98 pmid:22470063 pmcid:PMC3334318 fatcat:ojjyinujjrdxtbxdczr3quhv7m

Metabolome analysis: the potential of in vivo labeling with stable isotopes for metabolite profiling

Claudia Birkemeyer, Alexander Luedemann, Cornelia Wagner, Alexander Erban, Joachim Kopka
2005 Trends in Biotechnology  
Metabolome analysis technologies are still in early development because, unlike genome, transcriptome and proteome analyses, metabolome analysis has to deal with a highly diverse range of biomolecules.  ...  Saturation in vivo labeling with stable isotopes enables the biosynthesis of differentially mass-labeled metabolite mixtures, which can be exploited for highly standardized metabolite profiling by mass  ...  spectrometry (GC-MS) [2, 3, 9] , liquid chromatography-electrospray ionization-mass spectrometry (LC-ESI-MS) [11] [12] [13] , capillary electrophoresis coupled to mass spectrometry (CE-MS) [14] or  ... 
doi:10.1016/j.tibtech.2004.12.001 pmid:15629855 fatcat:dvpfuhclrfg2jbmxm2wzmuyt6q

Capillary electrophoresis mass spectrometry based metabolomics

Alexander Buko
2017 Journal of Applied Bioanalysis  
For example, for years liquid chromatography-mass spectrometry (LC-MS) has been used to capture a host of hydrophilic and hydrophobic metabolites, while gas chromatography-mass spectrometry (GC-MS) has  ...  Capillary electrophoresis-mass spectrometry (CE-MS) is a powerful orthogonal technique capable of filling in gaps in the identification, quantitation and isomeric resolution of many small hydrophilic and  ...  Alberice JV, Amaral AF, Armitage EG et al.Searching for urine biomarkers of bladder cancer recurrence using a liquid chromatography-mass spectrometry and capillary electrophoresis-mass spectrometry metabolomics  ... 
doi:10.17145/jab.17.002 fatcat:sywlfm5b65fqpindlz3wlc457u

Galaxy-M: a Galaxy workflow for processing and analyzing direct infusion and liquid chromatography mass spectrometry-based metabolomics data

Robert L. Davidson, Ralf J. M. Weber, Haoyu Liu, Archana Sharma-Oates, Mark R. Viant
2016 GigaScience  
Named Galaxy-M, our workflow has been developed for both direct infusion mass spectrometry (DIMS) and liquid chromatography mass spectrometry (LC-MS) metabolomics.  ...  Results: Here we present our end-to-end mass spectrometry metabolomics workflow in the widely used platform, Galaxy.  ...  Liquid chromatography-mass spectrometry In the same manner as the DIMS example, a subset of LC-MS data was taken from an existing, published dataset within the MetaboLights repository, accession number  ... 
doi:10.1186/s13742-016-0115-8 pmid:26913198 pmcid:PMC4765054 fatcat:nx3bwbrs3nbqxlxbr2qiszyupe

The future perspective: metabolomics in laboratory medicine for inborn errors of metabolism

Yana Sandlers
2017 Translational Research: The Journal of Laboratory and Clinical Medicine  
Erica Fatica for assistance in manuscript editing.  ...  (Translational Research 2017;189:65-75) Abbreviations: GC-MS ¼ gas chromatography mass spectrometry; LC-MS ¼ liquid chromatography mass spectrometry; CSF ¼ Cerebrospinal fluid; IEM ¼ inborn errors of metabolism  ...  Currently, nuclear magnetic resonance spectroscopy (NMR) and mass spectrometry (MS) are the dominant tools in the metabolomics field.  ... 
doi:10.1016/j.trsl.2017.06.005 pmid:28675806 fatcat:t7hxr4aho5hh5kwvyjg2dhqo4u

Development, characterization and comparisons of targeted and non-targeted metabolomics methods

Anton Ribbenstedt, Haizea Ziarrusta, Jonathan P. Benskin, Francisco J. Schopfer
2018 PLoS ONE  
carnitines, 83 phosphatidylcholines, and 9 sphingomyelins) using ultra-performance liquid chromatographytandem mass spectrometry (UPLC-MS/MS) and flow injection-tandem mass spectrometry (FI-MS/MS).  ...  However, even following correction of non-target data for signal drift, the precision of targeted data was better, confirming our existing assumptions about the strengths of targeted metabolomics.  ...  Acknowledgments Lur Ziarrusta Intxaurtza is thanked for his assistance with data processing. The University of the Basque Country (UPV/EHU) is thanked for providing fish tissues.  ... 
doi:10.1371/journal.pone.0207082 fatcat:4takvpg7lfcrtitkjjiuibju6y

LC-MS METABOLOMICS FROM STUDY DESIGN TO DATA-ANALYSIS – USING A VERSATILE PATHOGEN AS A TEST CASE

Maya Berg, Manu Vanaerschot, Andris Jankevics, Bart Cuypers, Rainer Breitling, Jean-Claude Dujardin
2013 Computational and Structural Biotechnology Journal  
The LC-MS platform The favorite technology for global metabolic profiling (metabolomics) are so-called hyphenated MS platforms, such as gas chromatography-mass spectrometry (GC-MS), liquid chromatography-mass  ...  To handle drift in mass calibration, ubiquitously detected contaminants of known exact mass can be used for internal mass calibration or to align spectra after the unavoidable mass drift during long term  ... 
doi:10.5936/csbj.201301002 pmid:24688684 pmcid:PMC3962178 fatcat:x22bej2ruzhcjmjzyqjtsgjfcy

Grapevine and Wine Metabolomics-Based Guidelines for FAIR Data and Metadata Management

Stefania Savoi, Panagiotis Arapitsas, Éric Duchêne, Maria Nikolantonaki, Ignacio Ontañón, Silvia Carlin, Florian Schwander, Régis D. Gougeon, António César Silva Ferreira, Georgios Theodoridis, Reinhard Töpfer, Urska Vrhovsek (+3 others)
2021 Metabolites  
We hope that these guidelines will be helpful for the grapevine and wine metabolomics community and that it will benefit from the true potential of data usage in creating new knowledge being revealed.  ...  In the era of big and omics data, good organization, management, and description of experimental data are crucial for achieving high-quality datasets.  ...  We would like to thank Nigel Robinson for his suggestions on the Data Citation Index, Clarivate. Conflicts of Interest: The authors declare no conflict of interest.  ... 
doi:10.3390/metabo11110757 pmid:34822415 pmcid:PMC8618349 fatcat:tycolyaktzgvfa6xmvc23yb5qm

Ergosterol-Induced Sesquiterpenoid Synthesis in Tobacco Cells

Fidele Tugizimana, Paul A. Steenkamp, Lizelle A. Piater, Ian A. Dubery
2012 Molecules  
Liquid chromatography coupled to mass spectrometry was used for quantitative and qualitative analyses.  ...  Thin layer chromatography was used as a screening method for identification of sesquiterpenoids in tobacco extracts.  ...  A range of analytical platforms used in metabolomics includes gas chromatography-mass spectrometry (GC-MS), capillary electrophoresis-mass spectrometry (CE-MS), liquid chromatography-mass spectrometry  ... 
doi:10.3390/molecules17021698 pmid:22322447 pmcid:PMC6268458 fatcat:hctuo54mxzarzijloggubp3cau

Challenges in Identifying the Dark Molecules of Life

María Eugenia Monge, James N. Dodds, Erin S. Baker, Arthur S. Edison, Facundo M. Fernández
2019 Annual Review of Analytical Chemistry  
In this review, we critically discuss the state-of-the-art in metabolite identification with specific applications in metabolomics and how technologies such as mass spectrometry, ion mobility, chromatography  ...  Technological advances in mass spectrometry, liquid- and gas-phase separations, nuclear magnetic resonance spectroscopy, and big data analytics have now made it possible to study metabolism at an omics  ...  Nuclear magnetic resonance (NMR) and liquid chromatography mass spectrometry (LC-MS) are the main platforms used for metabolomics, each with its own advantages and disadvantages in terms of sensitivity  ... 
doi:10.1146/annurev-anchem-061318-114959 pmid:30883183 pmcid:PMC6716371 fatcat:xp2ey4drrncp5dzdcqxuk7m7ti

The Relevance of Mass Spectrometry Analysis for Personalized Medicine through Its Successful Application in Cancer "Omics"

Ciocan-Cartita, Jurj, Buse, Gulei, Braicu, Raduly, Cojocneanu, Pruteanu, Iuga, Coza, Berindan-Neagoe
2019 International Journal of Molecular Sciences  
Mass spectrometry (MS) is an essential analytical technology on which the emerging omics domains; such as genomics; transcriptomics; proteomics and metabolomics; are based.  ...  The routine performance of MS technology in the oncological field provides a better understanding of human diseases in terms of pathophysiology; prevention; diagnosis and treatment; as well as development  ...  MS Liquid chromatography-mass spectrometry LC-MS/MS Liquid chromatography-tandem mass spectrometry lncRNAs Long non-codingribonucleic acids LRP Labeled reference peptide m/z mass to charge ratio MALDI  ... 
doi:10.3390/ijms20102576 fatcat:cskbpb46dbcyxgo2qx6sutnqym
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