Untargeted Metabolomics

  1. Gika, H.G., et al., Current practice of liquid chromatography-mass spectrometry in metabolomics and metabonomics. J Pharm Biomed Anal, 2014. 87: p. 12-25.
  2. Gika, H.G., I.D. Wilson, and G.A. Theodoridis, LC-MS-based holistic metabolic profiling. Problems, limitations, advantages, and future perspectives. J Chromatogr B Analyt Technol Biomed Life Sci, 2014. 966: p. 1-6.
  3. Theodoridis, G., H.G. Gika, and I.D. Wilson, Mass spectrometry-based holistic analytical approaches for metabolite profiling in systems biology studies. Mass Spectrom Rev, 2011. 30(5): p. 884-906.
  4. Theodoridis, G.A., et al., Liquid chromatography-mass spectrometry based global metabolite profiling: a review. Anal Chim Acta, 2012. 711: p. 7-16.
  1. Moros, G., et al., Investigation of the derivatization conditions for GC-MS metabolomics of biological samples. Bioanalysis, 2017. 9(1): p. 53-65.
  2. Gika, H.G., et al., Protocol for quality control in metabolic profiling of biological fluids by U(H)PLC-MS. J Chromatogr B Analyt Technol Biomed Life Sci, 2016. 1008: p. 15-25.
  3. Michopoulos, F., et al., Solid phase extraction methodology for UPLC-MS based metabolic profiling of urine samples. Electrophoresis, 2015.
  4. Rainville, P.D., et al., Advances in liquid chromatography coupled to mass spectrometry for metabolic phenotyping. TrAC Trends in Analytical Chemistry, 2014. 61: p. 181-191.
  5. Want, E.J., et al., Global metabolic profiling of animal and human tissues via UPLC-MS. Nat Protoc, 2013. 8(1): p. 17-32.
  6. Theodoridis, G., et al., LC-MS based global metabolite profiling of grapes: solvent extraction protocol optimisation. Metabolomics, 2012. 8(2): p. 175-185.
  7. Gika, H.G., et al., A QC approach to the determination of day-to-day reproducibility and robustness of LC-MS methods for global metabolite profiling in metabonomics/metabolomics. Bioanalysis, 2012. 4(18): p. 2239-47.
  8. Spagou, K., et al., HILIC-UPLC-MS for exploratory urinary metabolic profiling in toxicological studies. Anal Chem, 2011. 83(1): p. 382-90.
  9. Michopoulos, F., et al., UPLC-MS-based analysis of human plasma for metabonomics using solvent precipitation or solid phase extraction. J Proteome Res, 2009. 8(4): p. 2114-21.
  10. Ramautar, R., et al., Metabolic profiling of human urine by CE-MS using a positively charged capillary coating and comparison with UPLC-MS. Mol Biosyst, 2011. 7(1): p. 194-9.
  11. Michopoulos, F., et al., Metabolite profiles from dried blood spots for metabonomic studies using UPLC combined with orthogonal acceleration ToF-MS: effects of different papers and sample storage stability. Bioanalysis, 2011. 3(24): p. 2757-67.
  12. Michopoulos, F., et al., Extraction methods for the removal of phospholipids and other endogenous material from a biological fluid. Bioanalysis, 2011. 3(24): p. 2747-55.
  13. Gika, H. and G. Theodoridis, Sample preparation prior to the LC-MS-based metabolomics/metabonomics of blood-derived samples. Bioanalysis, 2011. 3(14): p. 1647-61.
  14. Aprea, E., et al., Metabolite profiling on apple volatile content based on solid phase microextraction and gas-chromatography time of flight mass spectrometry. J Chromatogr A, 2011. 1218(28): p. 4517-24.
  15. Want, E.J., et al., Global metabolic profiling procedures for urine using UPLC-MS. Nat Protoc, 2010. 5(6): p. 1005-18.
  16. Michopoulos, F., et al., Metabolite profiles from dried biofluid spots for metabonomic studies using UPLC combined with oaToF-MS. J Proteome Res, 2010. 9(6): p. 3328-34.
  17. Michopoulos, F., et al., Application of turbulent flow chromatography to the metabonomic analysis of human plasma: comparison with protein precipitation. J Sep Sci, 2010. 33(10): p. 1472-9.
  18. Gika, H.G., et al., Does the mass spectrometer define the marker? A comparison of global metabolite profiling data generated simultaneously via UPLC-MS on two different mass spectrometers. Anal Chem, 2010. 82(19): p. 8226-34.
  1. Virgiliou, C., et al., Metabolic profile of human coelomic fluid. Bioanalysis, 2017. 9(1): p. 37-51.
  2. Pechlivanis, A., et al., Monitoring the Response of the Human Urinary Metabolome to Brief Maximal Exercise by a Combination of RP-UPLC-MS and (1)H NMR Spectroscopy. J Proteome Res, 2015. 14(11): p. 4610-22.
  3. Pechlivanis, A., et al., GC-MS analysis of blood for the metabonomic investigation of the effects of physical exercise and allopurinol administration on rats. J Chromatogr B Analyt Technol Biomed Life Sci, 2014. 966: p. 127-31.
  4. Gika, H.G., et al., Investigation of chronic alcohol consumption in rodents via ultra-high-performance liquid chromatography-mass spectrometry based metabolite profiling. J Chromatogr A, 2012. 1259: p. 128-37.
  5. Spagou, K., et al., A GC-MS metabolic profiling study of plasma samples from mice on low- and high-fat diets. J Chromatogr B Analyt Technol Biomed Life Sci, 2011. 879(17-18): p. 1467-75.
  6. Loftus, N., et al., Metabonomic investigation of liver profiles of nonpolar metabolites obtained from alcohol-dosed rats and mice using high mass accuracy MSn analysis. J Proteome Res, 2011. 10(2): p. 705-13.
  7. Pechlivanis, A., et al., (1)H NMR-based metabonomic investigation of the effect of two different exercise sessions on the metabolic fingerprint of human urine. J Proteome Res, 2010. 9(12): p. 6405-16.
  8. Lai, L., et al., Methodological considerations in the development of HPLC-MS methods for the analysis of rodent plasma for metabonomic studies. Mol Biosyst, 2010. 6(1): p. 108-20.
  9. Friswell, M.K., et al., Site and strain-specific variation in gut microbiota profiles and metabolism in experimental mice. PLoS One, 2010. 5(1): p. e8584.
  10. Loftus, N., et al., Profiling and biomarker identification in plasma from different Zucker rat strains via high mass accuracy multistage mass spectrometric analysis using liquid chromatography/mass spectrometry with a quadrupole ion trap-time of flight mass spectrometer. Rapid Commun Mass Spectrom, 2008. 22(16): p. 2547-54.

Targeted Metabolomics

  1. Begou, O., et al., Hyphenated MS-based targeted approaches in metabolomics. Analyst, 2017. 142(17): p. 3079-3100.
  1. Gika et al, Quantitative profiling of polar primary metabolites using hydrophilic interaction ultrahigh performance liquid chromatography-tandem mass spectrometry. J Chromatogr. A, 2012.
  2. Pina, A., et al., Targeted profiling of hydrophilic constituents of royal jelly by hydrophilic interaction liquid chromatography-tandem mass spectrometry. J Chromatogr A, 2018. 1531: p. 53-63.
  3. Virgiliou, C., et al., Development and validation of a HILIC- MS/MS multi-targeted method for metabolomics applications. Electrophoresis, 2015.
  4. Michopoulos, F., et al., Targeted profiling of polar intracellular metabolites using ion-pair-high performance liquid chromatography and -ultra high performance liquid chromatography coupled to tandem mass spectrometry: applications to serum, urine and tissue extracts. J Chromatogr A, 2014. 1349: p. 60-8.
  1. Virgiliou, C., et al., Metabolic profile of human coelomic fluid. Bioanalysis, 2017. 9(1): p. 37-51.
  2. Deda, O., et al., Impact of exercise on fecal and cecal metabolome over aging: a longitudinal study in rats. Bioanalysis, 2017. 9(1): p. 21-36.
  3. Arapitsas, P., et al., Studying the effect of storage conditions on the metabolite content of red wine using HILIC LC-MS based metabolomics. Food Chem, 2016. 197 Pt B: p. 1331-40.
  4. Christou, C., et al., GC-MS analysis of organic acids in human urine in clinical settings: a study of derivatization and other analytical parameters. J Chromatogr B Analyt Technol Biomed Life Sci, 2014. 964: p. 195-201.

Therapeutic Drug Monitoring and Pharmaceutical Bio-Analysis (TDM)

  1. Ypsilantis, P., et al., Attenuation of propofol tolerance conferred by remifentanil co-administration does not reduce propofol toxicity in rabbits under prolonged mechanical ventilation. J Surg Res, 2011. 168(2): p. 253-61.
  2. Raikos, N., et al., Analysis of anaesthetics and analgesics in human urine by headspace SPME and GC. J Sep Sci, 2009. 32(7): p. 1018-26.
  3. Gika, H.G., et al., Determination of two COX-2 inhibitors in serum and synovial fluid of patients with inflammatory arthritis by ultra performance liquid chromatography-inductively coupled plasma mass spectroscopy and quadrupole time-of-flight mass spectrometry. J Pharm Biomed Anal, 2009. 49(3): p. 579-86.
  4. Tsimachidis, D., et al., Capillary electrophoretic chiral separation of Cinchona alkaloids using a cyclodextrin selector. J Sep Sci, 2008. 31(6-7): p. 1130-6.
  5. Theodoridis, G.A., C.K. Zacharis, and A.N. Voulgaropoulos, Automated sample treatment by flow techniques prior to liquid-phase separations. J Biochem Biophys Methods, 2007. 70(2): p. 243-52.
  6. Metallidis, S., et al., Penetration of linezolid into sternal bone of patients undergoing cardiopulmonary bypass surgery. Int J Antimicrob Agents, 2007. 29(6): p. 742-4.
  7. Fytianos, K., et al., Headspace solid-phase microextraction for the gas chromatographic analysis of organophosphorus insecticides in vegetables. J AOAC Int, 2007. 90(6): p. 1677-81.
  8. Zacharis, C.K., et al., Incorporation of a monolithic column into sequential injection system for drug-protein binding studies. J Chromatogr A, 2006. 1121(1): p. 46-54.
  9. Ypsilantis, P., et al., Tolerance to propofol’s sedative effect in mechanically ventilated Rabbits. Anesth Analg, 2006. 103(2): p. 359-65, table of contents.
  10. Theodoridis, G., et al., Molecular imprinting of natural flavonoid antioxidants: application in solid-phase extraction for the sample pretreatment of natural products prior to HPLC analysis. J Sep Sci, 2006. 29(15): p. 2310-21.
  11. Theodoridis, G., Application of solid-phase microextraction in the investigation of protein binding of pharmaceuticals. J Chromatogr B Analyt Technol Biomed Life Sci, 2006. 830(2): p. 238-44.
  12. Metallidis, S., et al., Penetration of moxifloxacin into sternal bone of patients undergoing routine cardiopulmonary bypass surgery. Int J Antimicrob Agents, 2006. 28(5): p. 428-32.
  13. Tsoukali, H., et al., Solid phase microextraction gas chromatographic analysis of organophosphorus pesticides in biological samples. J Chromatogr B Analyt Technol Biomed Life Sci, 2005. 822(1-2): p. 194-200.
  14. Zacharis, C.K., et al., Rapid spectrofluorimetric determination of lisinopril in pharmaceutical tablets using sequential injection analysis. Anal Bioanal Chem, 2004. 379(5-6): p. 759-63.
  15. Raikos, N., et al., Determination of amphetamines in human urine by headspace solid-phase microextraction and gas chromatography. J Chromatogr B Analyt Technol Biomed Life Sci, 2003. 789(1): p. 59-63.
  16. Tzanavaras, P.D., et al., Reversed flow-injection manifold for the spectrophotometric determination of captopril based on its inhibitory effect on the Co(II)-2,2′-dipyridyl-2-pyridylhydrazone complex formation. Talanta, 2002. 57(3): p. 575-81.

Amino Acids

  1. Zacharis, C.K., et al., A new method for the HPLC determination of gamma-hydroxybutyric acid (GHB) following derivatization with a coumarin analogue and fluorescence detection: application in the analysis of biological fluids. Talanta, 2008. 75(2): p. 356-61.
  2. Zacharis, C.K., et al., Sequential injection affinity chromatography utilizing an albumin immobilized monolithic column to study drug-protein interactions. J Chromatogr A, 2007. 1144(1): p. 126-34.
  3. Zacharis, C.K., G.A. Theodoridis, and A.N. Voulgaropoulos, Coupling of sequential injection with liquid chromatography for the automated derivatization and on-line determination of amino acids. Talanta, 2006. 69(4): p. 841-7.
  4. Zacharis, C.K., et al., Coupling of sequential injection analysis and capillary electrophoresis – Laser-induced fluorescence via a valve interface for on-line derivatization and analysis of amino acids and peptides. J Chromatogr A, 2006. 1132(1-2): p. 297-303.
  5. Zacharis, C.K., G.A. Theodoridis, and A.N. Voulgaropoulos, On-line coupling of sequential injection with liquid chromatography for the automated derivatization and determination of gamma-aminobutyric acid in human biological fluids. J Chromatogr B Analyt Technol Biomed Life Sci, 2004. 808(2): p. 169-75.


  1. Clusa, L., Ardura, A., Gower, F., Miralles, L., Tsartsianidou, V., Zaiko, A., Garcia-Vazquez, E. (2016). An easy phylogenetically informative method to trace the globally invasive Potamopyrgus mud snail from river’s eDNA. PloS one, 11(10), e0162899.
  2. Devloo-Delva, F., Miralles, L., Ardura, A., Borrell, Y. J., Pejovic, I., Tsartsianidou, V., & Garcia-Vazquez, E. (2016). Detection and characterisation of the biopollutant Xenostrobus securis (Lamarck 1819) Asturian population from DNA Barcoding and eBarcoding. Marine Pollution Bulletin, 105(1), 23-29.
  3. Garcia-Vazquez, Ε., Perez, J., Martinez, J. L., Pardinas, A. F., Lopez, B., Karaiskou, N., Casa, M. F., Machado-Schiaffino, G., Triantafyllidis, A. (2011). High level of mislabeling in Spanish and Greek hake markets suggests the fraudulent introduction of African species. Journal of Agricultural and Food Chemistry, 59, 475-480.
  4. Gkagkavouzis, K., Karaiskou, N., Katopodi, T., Leonardos, I., Abatzopoulos, T. J., & Triantafyllidis, A. (2019). The genetic population structure and temporal genetic stability of gilthead sea bream Sparus aurata populations in the Aegean and Ionian Seas, using microsatellite DNA markers. Journal of fish biology.
  5. Karaiskou N., Buggiotti L., Leder E., Primmer C.R. (2008). High degree of transferability of 86 newly developed zebra finch EST-linked microsatellite markers in 8 bird species. Journal of Heredity 6: 688-693.
  6. Karaiskou N., Lappa M., Kalomoiris S., Oikonomidis G., Psaltopoulou C., Abatzopoulos T.J., Triantaphyllidis C., Triantafyllidis A. (2011). Genetic monitoring and effects of stocking practices on small Greek Cyprinus carpio populations. Conservation genetics 5:1299-1311.
  7. Karaiskou N., Moran P., Georgitsakis G., Abatzopoulos T.J., Triantafyllidis A. (2010). High allelic variation of MHC class II alpha antigen and the role of selection in wild and cultured Sparus aurata populations. Hydrobiologia. 638:11-20.
  8. Karaiskou N., Triantafyllidis A., Katsares V., Abatzopoulos T.J., Triantaphyllidis C. (2009). Microsatellite variability of wild and farmed populations of Sparus aurata. Journal of fish biology. 74:1816-1825.
  9. Karaiskou, N., Tsakogiannis, A., Gkagkavouzis, K., Οperator of Parnitha’s National Park, Papika, S., Latsoudis, P., Kavakiotis, I., Pantis, J., Abatzopoulos, J. T., Triantaphyllidis, C., Triantafyllidis, A. (2014). Greece: A Balkan subrefuge for mammal populations the case of the last remnant red deer (Cervus elaphus L.) population. Journal of Heredity, 105(3), 334-344.
  10. Kavakiotis I., Triantafyllidis A., Ntelidou D., Alexandri P., Megens H.J., Crooijmans R., Groenen M.A.M., Tsoumakas G., Vlahavas I. (2015). TRES: Identification of Discriminatory and Informative SNPs from Population Genomic Data.”, Journal of Heredity, Wiley, 2015 Sep-Oct;106(5):672-6. doi: 10.1093/jhered/esv044. Epub 2015 Jul 2.
  11. Maroso, F., Hillen, J.E.J., Pardo, B.G., Gkagkavouzis, K., Coscia, I., Hermida, M., Franch, R., Hellemans, B., Van Houdt, J., Simionati, B., Taggart, J.B., Nielsen, E.E., Maes, G., Ciavaglia, S.A., Webster, L.M.I., Volckaert, F.A.M., Martinez, P., Bargelloni, L., Ogden, R., AquaTrace Consortium, 2018. Performance and precision of double digestion RAD (ddRAD) genotyping in large multiplexed datasets of marine fish species. Marine Genomics, 39, 64-72.
  12. Minoudi, S., Papapetridis, I., Karaiskou N., Chatzinikos, E., Abatzopoulos, T. J., Triantaphyllidis, C., Triantafyllidis, A. (2018) Genetic analyses of brown hare (Lepus europaeus) support limited migration and translocation of Greek populations. PLoS One. 13(10): e0206327
  13. Papakostas S., Dooms S., Triantafyllidis A., Deloof D., Kappas I., Dierckens K., Wolf T.D., Bossier P., Vadstein O., Kui S. et al. (2006). Evaluation of DNA methodologies in identifying Brachionus species used in European hatcheries. Aquaculture. 255:557-564.
  14. Papakostas S., Michaloudi E., Triantafyllidis A., Kappas I., Abatzopoulos T.J. (2013). Allochronic divergence and clonal succession: two microevolutionary processes sculpturing population structure of Brachionus rotifers. Hydrobiologia 700, 33-45. (IF 1,985).
  15. Tsaparis, D., Karaiskou, N., Mertzanis, Y., and Triantafyllidis, A. (2015). Non-invasive genetic study and population monitoring of brown bear (Ursus arctos) in Kastoria region – Greece. Journal of Natural History 49: 393-410.
  16. Tsartsianidou V, Triantafillidou D, Karaiskou N, Tarantili P, Triantafillidis G, Georgakis E, Triantafyllidis A. (2017) Caprine and ovine Greek dairy products: The official German method generates false-positive results due to κ-casein gene polymorphism. J Dairy Sci. 100, 3539-3547.
  17. Vlachavas A*., Karaiskou N.*, Kokokiris, L., Zampeta F.I. Drosopoulou E., Triantafyllidis A., (2018). Using genetic methods for analysis of fish meals and feeds employed in Greek mariculture. Aquaculture Research 50 (1): 312-322. *equal contribution.
  18. Yang, B., Cui, L., Perez-Enciso, M., Traspov, A., Crooijmans, R. P., Zinovieva, N., … & Triantafyllidis, A. (2017). Genome-wide SNP data unveils the globalization of domesticated pigs. Genetics Selection Evolution, 49 (1), 71.
  19. Minoudi, S., Karaiskou, N., Avgeris, M., Gkagkavouzis, K., Tarantili, P., Triantafyllidou, D., … & Triantafyllidis, A. (2020). Seafood mislabeling in Greek market using DNA barcoding. Food Control. 113:107213