| MZmine 2: Modular framework for processing, visualizing, and analyzing mass spectrometry-based molecular profile data T Pluskal, S Castillo, A Villar-Briones, M Orešič BMC Bioinformatics 11 (1), 395, 2010 | 4055 | 2010 |
| Feature-based Molecular Networking in the GNPS Analysis Environment LF Nothias, D Petras, R Schmid, K Dührkop, J Rainer, A Sarvepalli, ... Nature Methods 17, 905–908, 2020 | 1002 | 2020 |
| The Chemistry Development Kit (CDK) v2. 0: atom typing, depiction, molecular formulas, and substructure searching EL Willighagen, JW Mayfield, J Alvarsson, A Berg, L Carlsson, ... Journal of Cheminformatics 9 (1), 33, 2017 | 475 | 2017 |
| Integrative analysis of multimodal mass spectrometry data in MZmine 3 R Schmid, S Heuckeroth, A Korf, A Smirnov, O Myers, TS Dyrlund, ... Nature Biotechnology 41 (4), 447-449, 2023 | 370 | 2023 |
| Sequenceserver: a modern graphical user interface for custom BLAST databases A Priyam, BJ Woodcroft, V Rai, I Moghul, A Munagala, F Ter, ... Molecular biology and evolution 36 (12), 2922-2924, 2019 | 273 | 2019 |
| PBS3 and EPS1 complete salicylic acid biosynthesis from isochorismate in Arabidopsis MP Torrens-Spence, A Bobokalonova, V Carballo, CM Glinkerman, ... Molecular Plant 12 (12), 1577-1586, 2019 | 264 | 2019 |
| Ion identity molecular networking for mass spectrometry-based metabolomics in the GNPS environment R Schmid, D Petras, LF Nothias, M Wang, AT Aron, A Jagels, H Tsugawa, ... Nature Communications 12 (1), 1-12, 2021 | 185 | 2021 |
| Highly accurate chemical formula prediction tool utilizing high-resolution mass spectra, MS/MS fragmentation, heuristic rules, and isotope pattern matching T Pluskal, T Uehara, M Yanagida Analytical Chemistry 84 (10), 4396–4403, 2012 | 172 | 2012 |
| The Reference Genome Sequence of Scutellaria baicalensis Provides Insights into the Evolution of Wogonin Biosynthesis Q Zhao, J Yang, MY Cui, J Liu, Y Fang, M Yan, W Qiu, H Shang, Z Xu, ... Molecular Plant 12 (7), 935-950, 2019 | 156 | 2019 |
| Complete pathway elucidation and heterologous reconstitution of Rhodiola salidroside biosynthesis MP Torrens-Spence, T Pluskal, FS Li, V Carballo, JK Weng Molecular Plant 11 (1), 205-217, 2017 | 130 | 2017 |
| Genetic and Metabolomic Dissection of the Ergothioneine and Selenoneine Biosynthetic Pathway in the Fission Yeast, S. pombe, and Construction of an Overproduction System T Pluskal, M Ueno, M Yanagida PLOS ONE 9 (5), e97774, 2014 | 130 | 2014 |
| Synergistic roles of the proteasome and autophagy for mitochondrial maintenance and chronological lifespan in fission yeast K Takeda, T Yoshida, S Kikuchi, K Nagao, A Kokubu, T Pluskal, ... Proceedings of the National Academy of Sciences 107 (8), 3540-3545, 2010 | 103 | 2010 |
| Metabolic profiling of the fission yeast S. pombe: quantification of compounds under different temperatures and genetic perturbation T Pluskal, T Nakamura, A Villar-Briones, M Yanagida Molecular BioSystems 6 (1), 182-198, 2009 | 91 | 2009 |
| Specific biomarkers for stochastic division patterns and starvation‐induced quiescence under limited glucose levels in fission yeast T Pluskal, T Hayashi, S Saitoh, A Fujisawa, M Yanagida FEBS Journal 278 (8), 1299-1315, 2011 | 81 | 2011 |
| The biosynthetic origin of psychoactive kavalactones in kava T Pluskal, MP Torrens-Spence, TR Fallon, AD Abreu, CH Shi, JK Weng Nature Plants 5 (8), 867–878, 2019 | 73 | 2019 |
| SPLASH, a hashed identifier for mass spectra G Wohlgemuth, SS Mehta, RF Mejia, S Neumann, D Pedrosa, T Pluskal, ... Nature Biotechnology 34 (11), 1099-1101, 2016 | 73 | 2016 |
| A Transcript-Specific eIF3 Complex Mediates Global Translational Control of Energy Metabolism M Shah, D Su, JS Scheliga, T Pluskal, S Boronat, K Motamedchaboki, ... Cell Reports 16 (7), 1891-1902, 2016 | 72 | 2016 |
| Metabolomics Data Preprocessing Using ADAP and MZmine 2 X Du, A Smirnov, T Pluskal, W Jia, S Sumner Computational Methods and Data Analysis for Metabolomics, 25-48, 2020 | 69 | 2020 |
| Contribution of Untargeted Metabolomics for Future Assessment of Biotech Crops B Christ, T Pluskal, S Aubry, JK Weng Trends in Plant Science 23 (12), 1047-1056, 2018 | 63 | 2018 |
| A Red Algal Bourbonane Sesquiterpene Synthase Defined by Microgram-Scale NMR-Coupled Crystalline Sponge X-ray Diffraction Analysis RD Kersten, S Lee, D Fujita, T Pluskal, S Kram, JE Smith, T Iwai, JP Noel, ... Journal of the American Chemical Society 139 (46), 16838-16844, 2017 | 61 | 2017 |
