| Data‐independent acquisition‐based SWATH‐MS for quantitative proteomics: a tutorial C Ludwig, L Gillet, G Rosenberger, S Amon, BC Collins, R Aebersold Molecular systems biology 14 (8), e8126, 2018 | 920 | 2018 |
| OpenSWATH enables automated, targeted analysis of data-independent acquisition MS data HL Röst, G Rosenberger, P Navarro, L Gillet, SM Miladinović, ... Nature biotechnology 32 (3), 219-223, 2014 | 822 | 2014 |
| Multi-laboratory assessment of reproducibility, qualitative and quantitative performance of SWATH-mass spectrometry BC Collins, CL Hunter, Y Liu, B Schilling, G Rosenberger, SL Bader, ... Nature communications 8 (1), 291, 2017 | 545 | 2017 |
| diaPASEF: parallel accumulation–serial fragmentation combined with data-independent acquisition F Meier, AD Brunner, M Frank, A Ha, I Bludau, E Voytik, ... Nature methods 17 (12), 1229-1236, 2020 | 532 | 2020 |
| A repository of assays to quantify 10,000 human proteins by SWATH-MS G Rosenberger, CC Koh, T Guo, HL Röst, P Kouvonen, BC Collins, ... Scientific data 1 (1), 1-15, 2014 | 444 | 2014 |
| Rapid mass spectrometric conversion of tissue biopsy samples into permanent quantitative digital proteome maps T Guo, P Kouvonen, CC Koh, LC Gillet, WE Wolski, HL Röst, ... Nature medicine 21 (4), 407-413, 2015 | 383 | 2015 |
| Quantifying protein interaction dynamics by SWATH mass spectrometry: application to the 14-3-3 system BC Collins, LC Gillet, G Rosenberger, HL Röst, A Vichalkovski, ... Nature methods 10 (12), 1246-1253, 2013 | 365 | 2013 |
| Quantitative variability of 342 plasma proteins in a human twin population Y Liu, A Buil, BC Collins, LCJ Gillet, LC Blum, LY Cheng, O Vitek, ... Molecular systems biology 11 (2), 786, 2015 | 362 | 2015 |
| Building high-quality assay libraries for targeted analysis of SWATH MS data OT Schubert, LC Gillet, BC Collins, P Navarro, G Rosenberger, WE Wolski, ... Nature protocols 10 (3), 426-441, 2015 | 353 | 2015 |
| Quantitative proteomics: challenges and opportunities in basic and applied research OT Schubert, HL Röst, BC Collins, G Rosenberger, R Aebersold Nature protocols 12 (7), 1289-1294, 2017 | 302 | 2017 |
| Absolute proteome composition and dynamics during dormancy and resuscitation of Mycobacterium tuberculosis OT Schubert, C Ludwig, M Kogadeeva, M Zimmermann, G Rosenberger, ... Cell host & microbe 18 (1), 96-108, 2015 | 231 | 2015 |
| Statistical control of peptide and protein error rates in large-scale targeted data-independent acquisition analyses G Rosenberger, I Bludau, U Schmitt, M Heusel, CL Hunter, Y Liu, ... Nature methods 14 (9), 921-927, 2017 | 218 | 2017 |
| Glycoproteomic analysis of prostate cancer tissues by SWATH mass spectrometry discovers N-acylethanolamine acid amidase and protein tyrosine kinase 7 as signatures for tumor … Y Liu, J Chen, A Sethi, QK Li, L Chen, B Collins, LCJ Gillet, B Wollscheid, ... Molecular & Cellular Proteomics 13 (7), 1753-1768, 2014 | 215 | 2014 |
| TRIC: an automated alignment strategy for reproducible protein quantification in targeted proteomics HL Röst, Y Liu, G D'Agostino, M Zanella, P Navarro, G Rosenberger, ... Nature methods 13 (9), 777-783, 2016 | 188 | 2016 |
| mapDIA: Preprocessing and statistical analysis of quantitative proteomics data from data independent acquisition mass spectrometry G Teo, S Kim, CC Tsou, B Collins, AC Gingras, AI Nesvizhskii, H Choi Journal of proteomics 129, 108-120, 2015 | 158 | 2015 |
| Mass spectrometric protein maps for biomarker discovery and clinical research Y Liu, R Hüttenhain, B Collins, R Aebersold Expert review of molecular diagnostics 13 (8), 811-825, 2013 | 155 | 2013 |
| Complex‐centric proteome profiling by SEC‐SWATH‐MS M Heusel, I Bludau, G Rosenberger, R Hafen, M Frank, ... Molecular systems biology 15 (1), e8438, 2019 | 144 | 2019 |
| Inference and quantification of peptidoforms in large sample cohorts by SWATH-MS G Rosenberger, Y Liu, HL Röst, C Ludwig, A Buil, A Bensimon, M Soste, ... Nature biotechnology 35 (8), 781-788, 2017 | 135 | 2017 |
| Assessment of a method to characterize antibody selectivity and specificity for use in immunoprecipitation E Marcon, H Jain, A Bhattacharya, H Guo, S Phanse, S Pu, G Byram, ... Nature methods 12 (8), 725-731, 2015 | 124 | 2015 |
| From coarse to fine: the absolute Escherichia coli proteome under diverse growth conditions M Mori, Z Zhang, A Banaei‐Esfahani, JB Lalanne, H Okano, BC Collins, ... Molecular systems biology 17 (5), e9536, 2021 | 92 | 2021 |
