Biochemical individuality reflected in chromatographic, electrophoretic and mass-spectrometric profiles

Novotný, Miloš V.; Soini, Helena A.; Mechref, Yehia

doi:10.1016/j.jchromb.2007.10.007

Cited by 44 publications

(20 citation statements)

References 154 publications

(178 reference statements)

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“…Recent technological advances in instrumentation have led to renewed interest in metabolite profiling because increased analytical capability enables much deeper metabolite coverage than was achievable in early studies (1960-1970s) in this field [20]. Despite great recent progress in instrumentation, the analytical approaches used in global metabolomics studies are not yet as well-defined as in other "omics" studies and are currently an active area of research [21] and the subject of numerous reviews [9,[21][22][23].…”

Section: General Workflow Of Global Metabolomics or Untargeted Metabomentioning

confidence: 99%

Current trends and challenges in sample preparation for global metabolomics using liquid chromatography–mass spectrometry

2012

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The choice of sample-preparation method is extremely important in metabolomic studies because it affects both the observed metabolite content and biological interpretation of the data. An ideal sample-preparation method for global metabolomics should (i) be as non-selective as possible to ensure adequate depth of metabolite coverage; (ii) be simple and fast to prevent metabolite loss and/or degradation during the preparation procedure and enable high-throughput; (iii) be reproducible; and (iv) incorporate a metabolism-quenching step to represent true metabolome composition at the time of sampling. Despite its importance, sample preparation is often an overlooked aspect of metabolomics, so the focus of this review is to explore the role, challenges, and trends in sample preparation specifically within the context of global metabolomics by liquid chromatography-mass spectrometry (LC-MS). This review will cover the most common methods including solvent precipitation and extraction, solid-phase extraction and ultrafiltration, and discuss how to improve analytical quality and metabolite coverage in metabolomic studies of biofluids, tissues, and mammalian cells. Recent developments in this field will also be critically examined, including in vivo methods, turbulent-flow chromatography, and dried blood spot sampling.

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Section: General Workflow Of Global Metabolomics or Untargeted Metabomentioning

confidence: 99%

Current trends and challenges in sample preparation for global metabolomics using liquid chromatography–mass spectrometry

2012

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“…Thus, Kam and Poon (2008) have reviewed the potentials of glycomics in biomarker discovery and glycan mapping is also included in a review of metabolic profiling, that covers topics such as the use of MALDI-TOF MS for the study of glycosylation in prostate cancer (Novotny, Soini, & Mechref, 2008). A detailed review of the constituents of the human serum N-glycome and changes to the N-glycans in various disease states has been published (Klein, 2008) and Haslam et al (2008) have reviewed the current status of glycomics of the mammalian immune system including strategies and methods for characterization of N-and O-glycans.…”

Section: Medical Applicationsmentioning

confidence: 99%

Analysis of carbohydrates and glycoconjugates by matrix‐assisted laser desorption/ionization mass spectrometry: An update for 2007–2008

Harvey

2011

Mass Spectrometry Reviews

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This review is the fifth update of the original review, published in 1999, on the application of MALDI mass spectrometry to the analysis of carbohydrates and glycoconjugates and brings coverage of the literature to the end of 2008. The first section of the review covers fundamental studies, fragmentation of carbohydrate ions, use of derivatives and new software developments for analysis of carbohydrate spectra. Among newer areas of method development are glycan arrays, MALDI imaging and the use of ion mobility spectrometry. The second section of the review discusses applications of MALDI MS to the analysis of different types of carbohydrate. Specific compound classes that are covered include carbohydrate polymers from plants, N- and O-linked glycans from glycoproteins, biopharmaceuticals, glycated proteins, glycolipids, glycosides and various other natural products. There is a short section on the use of MALDI mass spectrometry for the study of enzymes involved in glycan processing and a section on the use of MALDI MS to monitor products of the chemical synthesis of carbohydrates with emphasis on carbohydrate-protein complexes and glycodendrimers. Corresponding analyses by electrospray ionization now appear to outnumber those performed by MALDI and the amount of literature makes a comprehensive review on this technique impractical. However, most of the work relating to sample preparation and glycan synthesis is equally relevant to electrospray and, consequently, those proposing analyses by electrospray should also find material in this review of interest.

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“…Společně představují účinný přístup pro analýzu komplexních bio logických směsí umožňující odhalit rozdíly na molekulární úrovni mezi fyziologickou a patologickou homeostázou. Biochemická individualita různých pacientů [17] spojená se statisticky významnými rozdíly ve složité struktuře proteinů či metabolitů měřených ve vzorcích získaných od různých jedinců musí být statisticky vyhodnocena v duchu systémové biologie, aby mohly být získány onkologicky relevantní informace z extrémně komplexního pozadí, z tzv. bio logického šumu.…”

Section: S123unclassified

New Trends in the Study of Protein Glycosylation in Oncological Diseases

Zahradníková¹,

Hernychová²,

Vojtěšek³

et al. 2014

Klin Onkol

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Regionální centrum aplikované molekulární onkologie, Masarykův onkologický ústav, Brno SouhrnGlykomika a glykoproteomika představují relativně nové směry pro analýzy komplexních biologických vzorků a jejich důležitost neustále roste. Tyto oblasti jsou komplementární k dalším zavedeným přístupům, např. ke genomickému profi lování a proteomice. Glykoproteiny jsou stále více uznávány jako důležité molekuly účastnící se buněčných interakcí a adhezí. Výskyt strukturních změn v glykanových částech se zdá být typický pro různé typy rakoviny. Násle-dující souhrn se zabývá aktuálními trendy v glykomickém profi lování a glykoproteomickém výzkumu bio logických tekutin a tkání se zaměřením na rakovinu. Použité metody jsou založeny na principech kapilárních separačních technik, hmotnostní spektrometrie a glykanových a lektinových čipů. Všechny zmíněné metody mají značný potenciál pro využití v dia gnostických a prediktivních vyšetřeních. Klíčová slovaglykomika -glykopeptidy -rakovina -kapalinová chromatografi e -hmotnostní spektrometrie -kapilární elektroforéza -glykanové profi lování -čipové analýzy SummaryGlycomics and glycoproteomics represent relatively new directions in detail analyses of complex bio logical media. These areas of increasing importance to cancer research complement the more established genomic profi ling and proteomics. Glycoproteins are being increasingly recognized as important in cellular interactions and adhesion. Structural alterations of their glycan moieties seem to occur in diff erent cancer conditions. We review current directions in glycomic profi ling and glycoproteomic investigations of bio logical fl uids and tissues pertaining to cancer. The used methods rely on capillary separation techniques, mass spectrometry, and the glycan and lectin arrays. They all show considerable promise for new dia gnostic and prognostic measurements.

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Biochemical individuality reflected in chromatographic, electrophoretic and mass-spectrometric profiles

Cited by 44 publications

References 154 publications

Current trends and challenges in sample preparation for global metabolomics using liquid chromatography–mass spectrometry

Current trends and challenges in sample preparation for global metabolomics using liquid chromatography–mass spectrometry

Analysis of carbohydrates and glycoconjugates by matrix‐assisted laser desorption/ionization mass spectrometry: An update for 2007–2008

New Trends in the Study of Protein Glycosylation in Oncological Diseases

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