| Extending the limits of quantitative proteome profiling with data-independent acquisition and application to acetaminophen-treated three-dimensional liver microtissues*[s] R Bruderer, OM Bernhardt, T Gandhi, SM Miladinoviĉ, LY Cheng, ... Molecular & Cellular Proteomics 14 (5), 1400-1410, 2015 | 731 | 2015 |
| Optimization of experimental parameters in data-independent mass spectrometry significantly increases depth and reproducibility of results R Bruderer, OM Bernhardt, T Gandhi, Y Xuan, J Sondermann, M Schmidt, ... Molecular & Cellular Proteomics 16 (12), 2296-2309, 2017 | 288 | 2017 |
| Optimization of experimental parameters in data-independent mass spectrometry significantly increases depth and reproducibility of results R Bruderer, OM Bernhardt, T Gandhi, Y Xuan, J Sondermann, M Schmidt, ... Molecular & Cellular Proteomics 16 (12), 2296-2309, 2017 | 288 | 2017 |
| Rapid and site-specific deep phosphoproteome profiling by data-independent acquisition without the need for spectral libraries DB Bekker-Jensen, OM Bernhardt, A Hogrebe, A Martinez-Val, L Verbeke, ... Nature communications 11 (1), 787, 2020 | 190 | 2020 |
| High‐precision iRT prediction in the targeted analysis of data‐independent acquisition and its impact on identification and quantitation R Bruderer, OM Bernhardt, T Gandhi, L Reiter Proteomics 16 (15-16), 2246-2256, 2016 | 130 | 2016 |
| Analysis of 1508 Plasma Samples by Capillary-Flow Data-Independent Acquisition Profiles Proteomics of Weight Loss and Maintenance'[S] R Bruderer, J Muntel, S Müller, OM Bernhardt, T Gandhi, O Cominetti, ... Molecular & Cellular Proteomics 18 (6), 1242-1254, 2019 | 118 | 2019 |
| Surpassing 10000 identified and quantified proteins in a single run by optimizing current LC-MS instrumentation and data analysis strategy J Muntel, T Gandhi, L Verbeke, OM Bernhardt, T Treiber, R Bruderer, ... Molecular omics 15 (5), 348-360, 2019 | 109 | 2019 |
| The yeast vacuolar membrane proteome E Wiederhold, T Gandhi, HP Permentier, R Breitling, B Poolman, ... Molecular & cellular proteomics 8 (2), 380-392, 2009 | 84 | 2009 |
| Isoform‐resolved correlation analysis between mRNA abundance regulation and protein level degradation B Salovska, H Zhu, T Gandhi, M Frank, W Li, G Rosenberger, C Wu, ... Molecular systems biology 16 (3), e9170, 2020 | 31 | 2020 |
| Physiological adaptation of the bacterium Lactococcus lactis in response to the production of human CFTR A Steen, E Wiederhold, T Gandhi, R Breitling, DJ Slotboom Molecular & Cellular Proteomics 10 (7), 2011 | 30 | 2011 |
| Revealing dynamic protein acetylation across subcellular compartments J Baeza, AJ Lawton, J Fan, MJ Smallegan, I Lienert, T Gandhi, ... Journal of proteome research 19 (6), 2404-2418, 2020 | 22 | 2020 |
| Plasma proteomics for epidemiology: increasing throughput with standard-flow rates X Yin, F Baig, E Haudebourg, RT Blankley, T Gandhi, S Müller, L Reiter, ... Circulation: Cardiovascular Genetics 10 (6), e001808, 2017 | 16 | 2017 |
| WITHDRAWN: Heralds of parallel MS: Data-independent acquisition surpassing sequential identification of data dependent acquisition in proteomics. R Bruderer, OM Bernhardt, T Gandhi, Y Xuan, J Sondermann, M Schmidt, ... Molecular & Cellular Proteomics: MCP, mcp. M116. 065730-mcp. M116. 065730, 2017 | 5 | 2017 |
| Apex Peptide Elution Chain Selection: A New Strategy for Selecting Precursors in 2D-LC− MALDI-TOF/TOF Experiments on Complex Biological Samples T Gandhi, F Fusetti, E Wiederhold, R Breitling, B Poolman, HP Permentier Journal of Proteome Research 9 (11), 5922-5928, 2010 | 5 | 2010 |
| Rapid and site-specific deep phosphoproteome profiling by data-independent acquisition (DIA) without the need for spectral libraries DB Bekker-Jensen, OM Bernhardt, A Hogrebe, AM del Val, L Verbeke, ... BioRxiv, 657858, 2019 | 4 | 2019 |
| Effect of iTRAQ labeling on the relative abundance of peptide fragment ions produced by MALDI-MS/MS T Gandhi, P Puri, F Fusetti, R Breitling, B Poolman, HP Permentier Journal of Proteome Research 11 (8), 4044-4051, 2012 | 4 | 2012 |
| Quantifying dynamic protein acetylation using quantitative stoichiometry J Baeza, AJ Lawton, J Fan, MJ Smallegan, I Lienert, T Gandhi, ... Preprint at https://www. biorxiv. org/content/10.1101/472530v1. full, 2018 | 3 | 2018 |
| Having a free lunch: A combined DIA+ DDA approach towards spectral library generation T Gandhi, L Verbeke, OM Bernhardt, R Bruderer, J Muntel, L Reiter | 1 | 2017 |
| Substantial Downregulation of Mitochondrial and Peroxisomal Proteins during Acute Kidney Injury revealed by Data-Independent Acquisition Proteomics JB Burton, A Silva-Barbosa, J Bons, JP Rose, K Pfister, F Simona, ... bioRxiv, 2023.02. 26.530107, 2023 | | 2023 |
| A Tale of Two-Data Independent Acquisition applied to maximize proteome coverage and throughput RM Bruderer, OM Bernhardt, T Gandhi, J Muntel, S Muller, P Mironova, ... Molecular & Cellular Proteomics 16 (8), S25-S25, 2017 | | 2017 |
