| Keyword search (4,163 papers available) | ![]() |
"Vuckovic D" Authored Publications:
| Title | Authors | PubMed ID | |
|---|---|---|---|
| 1 | Multi-stimuli-responsive degradable boronic ester-crosslinked e-spun nanofiber wound dressings | Casillas-Popova SN; Lokuge ND; Singh P; Cirillo A; Thinphang-Nga A; Skinner CD; Vuckovic D; Findlay BL; Oh JK; | 40557709 BIOLOGY |
| 2 | Technical recommendations for analyzing oxylipins by liquid chromatography-mass spectrometry | Schebb NH; Kampschulte N; Hagn G; Plitzko K; Meckelmann SW; Ghosh S; Joshi R; Kuligowski J; Vuckovic D; Botana MT; Sánchez-Illana Á; Zandkarimi F; Das A; Yang J; Schmidt L; Checa A; Roche HM; Armando AM; Edin ML; Lih FB; Aristizabal-Henao JJ; Miyamoto S; Giuffrida F; Moussaieff A; Domingues R; Rothe M; Hinz C; Das US; Rund KM; Taha AY; Hofstetter RK; Werner M; Werz O; Kahnt AS; Bertrand-Michel J; Le Faouder P; Gurke R; Thomas D; Torta F; Milic I; Dias IHK; Spickett CM; Biagini D; Lomonaco T; Idborg H; Liu J | 40392938 CHEMBIOCHEM |
| 3 | International interlaboratory study to normalize liquid chromatography-based mycotoxin retention times through implementation of a retention index system | Kelman MJ; Renaud JB; McCarron P; Hoogstra S; Chow W; Wang J; Varga E; Patriarca A; Vaya AM; Visintin L; Nguyen T; De Boevre M; De Saeger S; Karanghat V; Vuckovic D; McMullin DR; Dall' Asta C; Ayeni K; Warth B; Huang M; Tittlemier S; Mats L; Cao R; Sulyok M; Xu K; Berthiller F; Kuhn M; Cramer B; Ciasca B; Lattanzio V; De Baere S; Croubels S; DesRochers N; Sura S; Bates J; Wright EJ; Thapa I; Blackwell BA; Zhang K; Wong J; Burns L; Borts DJ; Sumarah MW; | 39913989 CHEMBIOCHEM |
| 4 | Myelin basic protein mRNA levels affect myelin sheath dimensions, architecture, plasticity, and density of resident glial cells | Bagheri H; Friedman H; Hadwen A; Jarweh C; Cooper E; Oprea L; Guerrier C; Khadra A; Collin A; Cohen-Adad J; Young A; Victoriano GM; Swire M; Jarjour A; Bechler ME; Pryce RS; Chaurand P; Cougnaud L; Vuckovic D; Wilion E; Greene O; Nishiyama A; Benmamar-Badel A; Owens T; Grouza V; Tuznik M; Liu H; Rudko DA; Zhang J; Siminovitch KA; Peterson AC; | 39023138 CSBN |
| 5 | Metabolomics 2023 workshop report: moving toward consensus on best QA/QC practices in LC-MS-based untargeted metabolomics | Mosley JD; Dunn WB; Kuligowski J; Lewis MR; Monge ME; Ulmer Holland C; Vuckovic D; Zanetti KA; Schock TB; | 38980450 CHEMBIOCHEM |
| 6 | Establishing a framework for best practices for quality assurance and quality control in untargeted metabolomics | Mosley JD; Schock TB; Beecher CW; Dunn WB; Kuligowski J; Lewis MR; Theodoridis G; Ulmer Holland CZ; Vuckovic D; Wilson ID; Zanetti KA; | 38345679 CHEMBIOCHEM |
| 7 | Current Practices in LC-MS Untargeted Metabolomics: A Scoping Review on the Use of Pooled Quality Control Samples | Broeckling CD; Beger RD; Cheng LL; Cumeras R; Cuthbertson DJ; Dasari S; Davis WC; Dunn WB; Evans AM; Fernández-Ochoa A; Gika H; Goodacre R; Goodman KD; Gouveia GJ; Hsu PC; Kirwan JA; Kodra D; Kuligowski J; Lan RS; Monge ME; Moussa LW; Nair SG; Reisdorph N; Sherrod SD; Ulmer Holland C; Vuckovic D; Yu LR; Zhang B; Theodoridis G; Mosley JD; | 38055671 CHEMBIOCHEM |
| 8 | Metabolomics 2022 workshop report: state of QA/QC best practices in LC-MS-based untargeted metabolomics, informed through mQACC community engagement initiatives | Dunn WB; Kuligowski J; Lewis M; Mosley JD; Schock T; Ulmer Holland C; Zanetti KA; Vuckovic D; | 37940740 CHEMBIOCHEM |
| 9 | Understanding the impact of radical changes in diet and the gut microbiota on brain function and structure: rationale and design of the EMBRACE study | Ben-Porat T; Alberga A; Audet MC; Belleville S; Cohen TR; Garneau PY; Lavoie KL; Marion P; Mellah S; Pescarus R; Rahme E; Santosa S; Studer AS; Vuckovic D; Woods R; Yousefi R; Bacon SL; | 37088645 PERFORM |
| 10 | Metabolism of anti-inflammatory OXE (oxoeicosanoid) receptor antagonists by nonhuman primates | Cossette C; Chourey S; Ye Q; Reddy CN; Wang R; Poulet S; Slobodchikova I; Vuckovic D; Rokach J; Powell WS; | 35158054 PERFORM |
| 11 | Assessment of solid phase microextraction as a sample preparation tool for untargeted analysis of brain tissue using liquid chromatography-mass spectrometry | Reyes-Garcés N; Boyaci E; Gómez-Ríos GA; Olkowicz M; Monnin C; Bojko B; Vuckovic D; Pawliszyn J; | 33433374 CHEMBIOCHEM |
| 12 | Dissemination and analysis of the quality assurance (QA) and quality control (QC) practices of LC-MS based untargeted metabolomics practitioners | Evans AM; O' Donovan C; Playdon M; Beecher C; Beger RD; Bowden JA; Broadhurst D; Clish CB; Dasari S; Dunn WB; Griffin JL; Hartung T; Hsu PC; Huan T; Jans J; Jones CM; Kachman M; Kleensang A; Lewis MR; Monge ME; Mosley JD; Taylor E; Tayyari F; Theodoridis G; Torta F; Ubhi BK; Vuckovic D; | 33044703 CONCORDIA |
| 13 | Comparison of N-ethyl maleimide and N-(1-phenylethyl) maleimide for derivatization of biological thiols using liquid chromatography-mass spectrometry | Russo MST; Napylov A; Paquet A; Vuckovic D; | 32016570 PERFORM |
| 14 | In Vivo Solid-Phase Microextraction for Sampling of Oxylipins in Brain of Awake, Moving Rats | Napylov A; Reyes-Garces N; Gomez-Rios G; Olkowicz M; Lendor S; Monnin C; Bojko B; Hamani C; Pawliszyn J; Vuckovic D; | 31697450 CHEMBIOCHEM |
| 15 | Novel highly potent OXE receptor antagonists with prolonged plasma lifetimes that are converted to active metabolites in vivo in monkeys. | Ye Q, Chourey S, Reddy CN, Wang R, Cossette C, Gravel S, Slobodchikova I, Vuckovic D, Rokach J, Powell WS | 31655025 PERFORM |
| 16 | Comparison of underivatized silica and zwitterionic sulfobetaine hydrophilic interaction liquid chromatography stationary phases for global metabolomics of human plasma | Sonnenberg RA; Naz S; Cougnaud L; Vuckovic D; | 31439439 CHEMBIOCHEM |
| 17 | Characterization of Phase I and Glucuronide Phase II Metabolites of 17 Mycotoxins Using Liquid Chromatography-High-Resolution Mass Spectrometry | Slobodchikova I; Sivakumar R; Rahman MS; Vuckovic D; | 31344861 CBAMS |
| 18 | Pharmacokinetics and Metabolism of Selective Oxoeicosanoid (OXE) Receptor Antagonists and Their Effects on 5-Oxo-6,8,11,14-eicosatetraenoic Acid (5-Oxo-ETE)-Induced Granulocyte Activation in Monkeys. | Cossette C, Chourey S, Ye Q, Nagendra Reddy C, Gore V, Gravel S, Slobodchikova I, Vuckovic D, Rokach J, Powell WS | 27766872 PERFORM |
| 19 | In vivo α-hydroxylation of a 2-alkylindole antagonist of the OXE receptor for the eosinophil chemoattractant 5-oxo-6,8,11,14-eicosatetraenoic acid in monkeys. | Chourey S, Ye Q, Reddy CN, Cossette C, Gravel S, Zeller M, Slobodchikova I, Vuckovic D, Rokach J, Powell WS | 28476332 PERFORM |
| 20 | Improving negative liquid chromatography/electrospray ionization mass spectrometry lipidomic analysis of human plasma using acetic acid as a mobile-phase additive | Monnin C; Ramrup P; Daigle-Young C; Vuckovic D; | 29105990 CHEMBIOCHEM |
| 21 | Metabolism and pharmacokinetics of a potent N-acylindole antagonist of the OXE receptor for the eosinophil chemoattractant 5-oxo-6,8,11,14-eicosatetraenoic acid (5-oxo-ETE) in rats and monkeys. | Reddy CN, Alhamza H, Chourey S, Ye Q, Gore V, Cossette C, Gravel S, Slobodchikova I, Vuckovic D, Rokach J, Powell WS | 29339225 PERFORM |
| 22 | Liquid chromatography - high resolution mass spectrometry method for monitoring of 17 mycotoxins in human plasma for exposure studies | Slobodchikova I; Vuckovic D; | 29576275 CHEMBIOCHEM |
| 23 | Corrigendum to "In vivo α-hydroxylation of a 2-alkylindole antagonist of the OXE receptor for the eosinophil chemoattractant 5-oxo-6,8,11,14-eicosatetraenoic acid in monkeys" [Biochem. Pharmacol. 138 (2017) 107-118]. | Chourey S, Ye Q, Reddy CN, Cossette C, Gravel S, Zeller M, Slobodchikova I, Vuckovic D, Rokach J, Powell WS | 29754018 PERFORM |
| 24 | Novel Highly Potent and Metabolically Resistant Oxoeicosanoid (OXE) Receptor Antagonists That Block the Actions of the Granulocyte Chemoattractant 5-Oxo-6,8,11,14-Eicosatetraenoic Acid (5-oxo-ETE). | Chourey S, Ye Q, Reddy CN, Wang R, Cossette C, Gravel S, Slobodchikova I, Vuckovic D, Rokach J, Powell WS | 29972644 PERFORM |
| Title: | Current Practices in LC-MS Untargeted Metabolomics: A Scoping Review on the Use of Pooled Quality Control Samples | ||||
| Authors: | Broeckling CD, Beger RD, Cheng LL, Cumeras R, Cuthbertson DJ, Dasari S, Davis WC, Dunn WB, Evans AM, Fernández-Ochoa A, Gika H, Goodacre R, Goodman KD, Gouveia GJ, Hsu PC, Kirwan JA, Kodra D, Kuligowski J, Lan RS, Monge ME, Moussa LW, Nair SG, Reisdorph N, Sherrod SD, Ulmer Holland C, Vuckovic D, Yu LR, Zhang B, Theodoridis G, Mosley JD | ||||
| Link: | https://pubmed.ncbi.nlm.nih.gov/38055671/ | ||||
| DOI: | 10.1021/acs.analchem.3c02924 | ||||
| Publication: | Analytical chemistry | ||||
| Keywords: | |||||
| PMID: | 38055671 | Category: | Date Added: | 2023-12-06 | |
| Dept Affiliation: |
CHEMBIOCHEM
1 Analytical Resources Core: Bioanalysis and Omics Center; Department of Agricultural Biology, Colorado State University, Fort Collins, Colorado 80525, United States. 2 Division of Systems Biology, National Center for Toxicological Research, U.S. Food and Drug Administration, Jefferson, Arkansas 72079, United States. 3 Departments of Radiology and Pathology, Massachusetts General Hospital, Harvard Medical School, Boston, Massachusetts 02114, United States. 4 Department of Oncology, Hospital Universitari Sant Joan de Reus, Institut d'Investigació Sanitària Pere Virgili (IISPV), URV, CERCA, 43204 Reus, Spain. 5 Agilent Technologies Inc., 5301 Stevens Creek Blvd, Santa Clara, California 95051, United States. 6 Department of Quantitative Health Sciences, Mayo Clinic, Rochester, Minnesota 55905, United States. 7 National Institute of Standards and Technology, Chemical Sciences Division, 331 Fort Johnson Road, Charleston, South Carolina 29412, United States. 8 Centre for Metabolomics Research, Department of Biochemistry and Systems Biology, Institute of Systems, Molecular and Integrative Biology, University of Liverpool, BioSciences Building, Crown St., Liverpool L69 7ZB,U.K. 9 Metabolon, Inc. 617 Davis Drive, Suite 100, Morrisville, North Carolina 27560, United States. 10 Department of Analytical Chemistry, University of Granada, 18071 Granada, Spain. 11 School of Medicine, Aristotle University of Thessaloniki, 54124 Thessaloniki, Greece. 12 Metabolon, Inc., 617 Davis Drive, Suite 100, Morrisville, North Carolina 27560, United States. 13 Institute for Bioscience and Biotechnology Research, National Institute of Standards and Technology, University of Maryland, Gudelsky Drive, Rockville, Maryland 20850, United States. 14 Department of Environmental Health Sciences, University of Arkansas for Medical Sciences, Little Rock, Arkansas 72205-7190, United States. 15 Metabolomics, Berlin Institute of Health at Charite, Anna-Louisa-Karsch-Str. 2, 10178 Berlin, Germany. 16 Department of Chemistry, Aristotle University of Thessaloniki, 54124 Thessaloniki, Greece. 17 Neonatal Research Group, Health Research Institute La Fe, Avenida Fernando Abril Martorell 106, 46026 Valencia, Spain. 18 Arkansas Children's Nutrition Center, Little Rock, Arkansas 72202-3591, United States. 19 Centro de Investigaciones en Bionanociencias (CIBION), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Godoy Cruz 2390, C1425FQD Ciudad de Buenos Aires, Argentina. 20 Center for Veterinary Medicine, Office of New Animal Drug Evaluation, U.S. Food and Drug Administration, Rockville, Maryland 20855, United States. 21 Department of Biological Sciences, University of Alberta, Edmonton, AB T6G 2G2, Canada. 22 Department of Pharmaceutical Sciences, University of Colorado-Anschutz Medical Campus, Aurora, Colorado 80045, United States. 23 Department of Chemistry and Center for Innovative Technology, Vanderbilt University, Nashville, Tennessee 37240, United States. 24 Chemistry Branch, Eastern Laboratory, Office of Public Health Science, USDA-FSIS, Athens, Georgia 30605, United States. 25 Department of Chemistry and Biochemistry, Concordia University, 7141 Sherbrooke Street West, Montreal, QC H4B 1R6, Canada. 26 Olaris, Inc., 175 Crossing Blvd Suite 410, Framingham, Massachusetts 01702, United States. 27 Department of Chemistry, Aristotle University of Thessaloniki, Thessaloniki 54124, Gre |
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Description: |
Untargeted metabolomics is an analytical approach with numerous applications serving as an effective metabolic phenotyping platform to characterize small molecules within a biological system. Data quality can be challenging to evaluate and demonstrate in metabolomics experiments. This has driven the use of pooled quality control (QC) samples for monitoring and, if necessary, correcting for analytical variance introduced during sample preparation and data acquisition stages. Described herein is a scoping literature review detailing the use of pooled QC samples in published untargeted liquid chromatography-mass spectrometry (LC-MS) based metabolomics studies. A literature query was performed, the list of papers was filtered, and suitable articles were randomly sampled. In total, 109 papers were each reviewed by at least five reviewers, answering predefined questions surrounding the use of pooled quality control samples. The results of the review indicate that use of pooled QC samples has been relatively widely adopted by the metabolomics community and that it is used at a similar frequency across biological taxa and sample types in both small- and large-scale studies. However, while many studies generated and analyzed pooled QC samples, relatively few reported the use of pooled QC samples to improve data quality. This demonstrates a clear opportunity for the field to more frequently utilize pooled QC samples for quality reporting, feature filtering, analytical drift correction, and metabolite annotation. Additionally, our survey approach enabled us to assess the ambiguity in the reporting of the methods used to describe the generation and use of pooled QC samples. This analysis indicates that many details of the QC framework are missing or unclear, limiting the reader's ability to determine which QC steps have been taken. Collectively, these results capture the current state of pooled QC sample usage and highlight existing strengths and deficiencies as they are applied in untargeted LC-MS metabolomics. |



