2021 | 2020 | 2019 | 2018 | 2017 | 2016 | 2015 | Book Chapters


  • Klont, F.;  Kremer, D.;  Neto, A. W. G.;  Berger, S. P.;  Touw, D. J.;  Hak, E.;  Bonner, R.;  Bakker, S. J. L.; Hopfgartner, G., Metabolomics data complemented drug use information in epidemiological databases: pilot study of potential kidney donors. J Clin Epidemiol 2021
  • Ducati, A. O.;  Ruskic, D.;  Sosnowski, P.;  Baba, T.;  Bonner, R.; Hopfgartner, G., Improved metabolite characterization by liquid chromatography - Tandem mass spectrometry through electron impact type fragments from adduct ions. Anal Chim Acta 2021, 1150, 33820
  • Stricker, T.;  Bonner, R.;  Lisacek, F.; Hopfgartner, G., Adduct annotation in liquid chromatography/high-resolution mass spectrometry to enhance compound identification. Anal Bioanal Chem 2021, 413 (2), 503-517.


  • Akbal, L.; Hopfgartner, G., Supercritical fluid chromatography-mass spectrometry using data independent acquisition for the analysis of polar metabolites in human urine, J Chromatogr A 2020, 1609, 460449.

  • Sosnowski, P.; Hopfgartner, G., Application of 3D printed tools for customized open port probe-electrospray mass spectrometry. Talanta 2020, 215, 120894.

  • Hopfgartner, G., Bioanalytical method validation: How much should we do and how should we document? Anal Bioanal Chem 2020, 412 (3), 531-532.

  • Raetz, M.;  Bonner, R.; Hopfgartner, G., SWATH-MS for metabolomics and lipidomics: critical aspects of qualitative and quantitative analysis. Metabolomics 2020, 16 (6), 71.

  • Puszko, A. K.;  Sosnowski, P.;  Raynaud, F.;  Hermine, O.;  Hopfgartner, G.;  Lepelletier, Y.; Misicka, A., Does Cysteine Rule (CysR) Complete the CendR Principle? Increase in Affinity of Peptide Ligands for NRP-1 Through the Presence of N-Terminal Cysteine. Biomolecules 2020, 10 (3).
  • Klont, F.;  Jahn, S.;  Grivet, C.;  Konig, S.;  Bonner, R.; Hopfgartner, G., SWATH data independent acquisition mass spectrometry for screening of xenobiotics in biological fluids: Opportunities and challenges for data processing. Talanta 2020, 211, 120747.

  • Klont, F.; Hopfgartner, G., Bioanalytical research and training in academia during the COVID-19 pandemic. Bioanalysis 2020. doi:10.4155/bio-2020-0152
  • Cifuentes Girard, M. F.;  Ruskic, D.;  Böhm, G.;  Picenoni, R.; Hopfgartner, G., Automated parallel derivatization of metabolites with SWATH-MS data acquisition for qualitative and quantitative analysis. Analytica Chimica Acta 2020, 1127, 198-206.



  • Ruskic D, Hopfgartner G. Modifier Selectivity Effect on Differential Ion Mobility Resolution of Isomeric Drugs and Multidimensional Liquid Chromatography Ion Mobility Analysis. Anal Chem. 2019;91(18):11670-7. doi:10.1021/acs.analchem.9b0221.

  • Raetz M, Duchoslav E, Bonner R, Hopfgartner G. Hybrid SWATH/MS and HR-SRM/MS acquisition for phospholipidomics using QUAL/QUANT data processing. Anal Bioanal Chem. 2019. doi:10.1007/s00216-019-01946-4.

  • Akbal L, Hopfgartner G. Supercritical Fluid Chromatography - Mass Spectrometry using Data Independent Acquisition for the Analysis of Polar Metabolites in Human Urine. J Chromatogr A. 2019:460449.
  • Bravo-Veyrat S, Hopfgartner G. A Generic Approach for High-throughput Blood Analysis. Chimia (Aarau). 2019;73(6):416. doi:10.2533/chimia.2019.416
  • Puszko AK, Sosnowski P, Pulka-Ziach K, Hermine O, Hopfgartner G, Lepelletier Y et al. Urea moiety as amide bond mimetic in peptide-like inhibitors of VEGF-A165/NRP-1 complex. Bioorg Med Chem Lett. 2019. doi:10.1016/j.bmcl.2019.07.016.



  •  Fuchs, K.; Kiss, A.; Bize, P. E.; Duran, R.; Denys, A.; Hopfgartner, G.; Borchard, G.; Jordan, O., Mapping of drug distribution in the rabbit liver tumor model by complementary fluorescence and mass spectrometry imaging. J Control Release 2018, 269, 128-135.

  • Bruderer, T.; Varesio, E.; Hidasi, A. O.; Duchoslav, E.; Burton, L.; Bonner, R.; Hopfgartner, G., Metabolomic spectral libraries for data-independent SWATH liquid chromatography mass spectrometry acquisition. Anal Bioanal Chem 2018.

  • Bravo-Veyrat S, Hopfgartner G. High-throughput liquid chromatography differential mobility spectrometry mass spectrometry for bioanalysis: determination of reduced and oxidized form of glutathione in human blood. Anal Bioanal Chem. 2018;410(27):7153-61. doi:10.1007/s00216-018-1318-x.
  • Bonner R, Hopfgartner G. SWATH data independent acquisition mass spectrometry for metabolomics. TrAC Trends in Analytical Chemistry. 2018. doi:



  • Flinders, B.; Cuypers, E.; Porta, T.; Varesio, E.; Hopfgartner, G.; Heeren, R. M. A., Mass Spectrometry Imaging of Drugs of Abuse in Hair. Methods Mol Biol 2017, 1618, 137-147.

  • Bruderer, T.; Varesio, E.; Hopfgartner, G., The use of LC predicted retention times to extend metabolites identification with SWATH data acquisition. Journal of Chromatography B 2017.

  • Alghanem, B.; Nikitin, F.; Stricker, T.; Duchoslav, E.; Luban, J.; Strambio-De-Castillia, C.; Muller, M.; Lisacek, F.; Varesio, E.; Hopfgartner, G., Optimization by Infusion of Multiple Reaction Monitoring Transitions for Sensitive Peptides LC-MS Quantification. Rapid Commun Mass Spectrom 2017.

  • Akbal, L.; Hopfgartner, G., Effects of liquid post-column addition in electrospray ionization performance in supercritical fluid chromatography-mass spectrometry. J Chromatogr A 2017, 1517, 176-184.

  • Hopfgartner, G., What makes a good review from an editor's perspective? Anal Bioanal Chem 2017, 409 (29), 6721-6722.



  • .Wagner, M.; Tonoli, D.; Varesio, E.; Hopfgartner, G., The use of mass spectrometry to analyze dried blood spots. Mass Spectrom Rev 2016, 35 (3), 361-438.

  • Varesio, E.; Jahn, S.; Cudre, S.; Hopfgartner, G.; Picenoni, R.; Boehm, G., Smart Sample Prep in Chromatography: An Automated Liquid-Liquid Extraction Technique for Metabolomics Analysis. Am Lab 2016, 48 (2), 28-31.

  • Kiss, A.; Hopfgartner, G., Laser-based methods for the analysis of low molecular weight compounds in biological matrices. Methods 2016, 104, 142-53.

  • Bonner, R.; Hopfgartner, G., SWATH acquisition mode for drug metabolism and metabolomics investigations. Bioanalysis 2016, 8 (16), 1735-1750.

  • Bilbao, A.; Lisacek, F.; Hopfgartner, G., Dedicated Software Enhancing Data-independent Acquisition Methods in Mass Spectrometry. Chimia (Aarau) 2016, 70 (4), 293.



  • Zhang, Y.; Bottinelli, D.; Lisacek, F.; Luban, J.; Strambio-De-Castillia, C.; Varesio, E.; Hopfgartner, G., Optimization of human dendritic cell sample preparation for mass spectrometry-based proteomic studies. Anal Biochem 2015, 484, 40-50.

  • Zhang, Y.; Bilbao, A.; Bruderer, T.; Luban, J.; Strambio-De-Castillia, C.; Lisacek, F.; Hopfgartner, G.; Varesio, E., The Use of Variable Q1 Isolation Windows Improves Selectivity in LC-SWATH-MS Acquisition. J. Proteome Res 2015, 14 (10), 4359-71.

  • Watanabe, K.; Kuehn, E.; Varesio, E.; Hopfgartner, G., Simultaneous Quantitative Analysis of HIV Protease Inhibitors in Human Plasma Using Core-Shell Column and Fast MRM Detection. Chromatography 2015, 36 (3), 127-131.

  • Schmidt, G. W.; Jirschitzka, J.; Porta, T.; Reichelt, M.; Luck, K.; Torre, J. C. P.; Dolke, F.; Varesio, E.; Hopfgartner, G.; Gershenzon, J.; D'Auria, J. C., The Last Step in Cocaine Biosynthesis Is Catalyzed by a BAHD Acyltransferase. Plant Physiology 2015, 167 (1), 89-101.

  • Sajic, T.; Varesio, E.; Szanto, I.; Hopfgartner, G., Comparison of fractionation strategies for offline two-dimensional liquid chromatography tandem mass spectrometry analysis of proteins from mouse adipose tissue. Anal Biochem 2015, 484, 122-32.

  • Porta, T.; Lesur, A.; Varesio, E.; Hopfgartner, G., Quantification in MALDI-MS imaging: what can we learn from MALDI-selected reaction monitoring and what can we expect for imaging? Anal Bioanal Chem. 2015, 407 (8), 2177-87.

  • Bourgogne, E.; Grivet, C.; Varesio, E.; Hopfgartner, G., Generic on-line solid phase extraction sample preparation strategies for the analysis of drugs in biological matrices by LC-MS/MS. J Pharm Biomed Anal. 2015, 102, 290-8.

  • Bilbao, A.; Zhang, Y.; Varesio, E.; Luban, J.; Strambio-De-Castillia, C.; Lisacek, F.; Hopfgartner, G., Ranking Fragment Ions Based on Outlier Detection for Improved Label-Free Quantification in Data-Independent Acquisition LC-MS/MS. J Proteome Res 2015, 14 (11), 4581-93.

  • Bilbao, A.; Varesio, E.; Luban, J.; Strambio-De-Castillia, C.; Hopfgartner, G.; Muller, M.; Lisacek, F., Processing strategies and software solutions for data-independent acquisition in mass spectrometry. Proteomics 2015, 15 (5-6), 964-980.


BOOK Chapters

  • Hopfgartner, G.; Varesio, E., Tandem Mass Spectrometry Hyphenated with HPLC and UHPLC for Targeted Metabolomic. In Metabolomics in Practice: Successful Strategies to Generate and Analyze Metabolic Data, Michael Lämmerhofer (Editor), W. W. E., Ed. Wiley: 2012; p 21.

  • Hopfgartner, G., Overview of the Various Types of Mass Spectrometers that are Used in Drug Discovery and Drug Development. In Mass Spectrometry for Drug Discovery and Drug Development, (Editor), W. A. K., Ed. Wiley: 2012; p 1.

  • Hopfgartner, G., Theory and Instrumentation of Mass Spectrometry in Drug Metabolism and Disposition. In Drug Metabolism and Disposition: Basic Principles and Applications, Wiley, Ed. 2011.

  • Hopfgartner, G., Reactive metabolite screening and covalent-binding assays. In Using Mass Spectrometry for Drug Metabolism Studies (2nd Edition), 2010; pp 205-228.

  • Godin, J. P.; Fay, L.; Hopfgartner, G., Liquid Chromatography (LC) IRMS In The Encyclopedia of Mass Spectrometry; Volume 5: Elemental and Isotope Ratio Mass Spectrometry Elsevier, Ed. Elsevier: 2010; pp 790-802.

  • Hopfgartner, G., Mass spectrometry in bioanalysis - methods, principles and instrumentation. In Methods and Principles in Medicinal Chemistry, 2007; Vol. 36, pp 3-62.

  • Hopfgartner, G., Identification of metabolites by multi-instrument strategies (LC-MS-MS on various platform). In The Encyclopedia of Mass Spectrometry, Volume 8: Hyphenated Methods, Elsevier, Ed. 2006.

  • Hopfgartner, G.; Zell, M., Q Trap MS: A new tool for metabolite identification. In Using Mass Spectrometry for Drug Metabolism Studies, 2005; pp 277-304.