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Oliver M. Bernhardt
Oliver M. Bernhardt
Biognosys AG
Dirección de correo verificada de biognosys.com - Página principal
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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 Miladinović, LY Cheng, ...
Molecular & Cellular Proteomics 14 (5), 1400-1410, 2015
9092015
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
3732017
A multicenter study benchmarks software tools for label-free proteome quantification
P Navarro, J Kuharev, LC Gillet, OM Bernhardt, B MacLean, HL Röst, ...
Nature biotechnology 34 (11), 1130-1136, 2016
3252016
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
2842020
Reproducible and consistent quantification of the Saccharomyces cerevisiae proteome by SWATH-mass spectrometry
N Selevsek, CY Chang, LC Gillet, P Navarro, OM Bernhardt, L Reiter, ...
Molecular & Cellular Proteomics 14 (3), 739-749, 2015
1932015
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
1492019
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
1452019
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
1412016
MassIVE. quant: a community resource of quantitative mass spectrometry–based proteomics datasets
M Choi, J Carver, C Chiva, M Tzouros, T Huang, TH Tsai, B Pullman, ...
Nature methods 17 (10), 981-984, 2020
632020
Spectronaut: a fast and efficient algorithm for MRM-like processing of data independent acquisition (SWATH-MS) data
OM Bernhardt, N Selevsek, LC Gillet, O Rinner, P Picotti, R Aebersold, ...
Biognosys. ch, 2012
552012
Data-independent Acquisition Improves Quantitative Cross-linking Mass Spectrometry*[S]
F Müller, L Kolbowski, OM Bernhardt, L Reiter, J Rappsilber
Molecular & Cellular Proteomics 18 (4), 786-795, 2019
372019
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
312020
MSstats Version 4.0: statistical analyses of quantitative mass spectrometry-based proteomic experiments with chromatography-based quantification at scale
D Kohler, M Staniak, TH Tsai, T Huang, N Shulman, OM Bernhardt, ...
Journal of Proteome Research 22 (5), 1466-1482, 2023
132023
Substantial downregulation of mitochondrial and peroxisomal proteins during acute kidney injury revealed by data‐independent acquisition proteomics
JB Burton, A Silva‐Barbosa, J Bons, J Rose, K Pfister, F Simona, ...
Proteomics 24 (5), 2300162, 2024
52024
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
52017
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
42019
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
32018
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
12017
Pulsar: A Search Engine Integrated into Spectronaut using Dynamic PSM Stratification
L Verbeke, OM Bernhardt, T Gandhi, R Bruderer, L Reiter
1
Quantitative profiling of HLA class I and class II antigens and neoantigens in tissue biopsy and PBMC samples using an optimized mass spectrometry-based workflow
IE Shapiro, M Tognetti, T Temu, OM Bernhardt, D Redfern, Y Feng, ...
Cancer Research 84 (6_Supplement), 5376-5376, 2024
2024
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