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Ben C. Collins · SciRah

Researcher profile · Semantic Scholar

Ben C. Collins

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Ben C. Collins — researcher profile on SciRah

h-index: 35
Works: 74
Citations: 7,236

Most-cited papers

Data‐independent acquisition‐based SWATH‐MS for quantitative proteomics: a tutorial
C. Ludwig, Ludovic C. J. Gillet, George A. Rosenberger, S. Amon +2 more
2018Molecular Systems Biology910 citations Open access
Semantic Scholar
diaPASEF: parallel accumulation–serial fragmentation combined with data-independent acquisition
F. Meier, Andreas-David Brunner, Max Frank, Annie Ha +10 more
2020Nature Methods802 citations Open access
Semantic Scholar
Multi-laboratory assessment of reproducibility, qualitative and quantitative performance of SWATH-mass spectrometry
Ben C. Collins, C. Hunter, Yan-Sheng Liu, B. Schilling +21 more
2016Nature Communications532 citations Open access
Semantic Scholar
A repository of assays to quantify 10,000 human proteins by SWATH-MS
George A. Rosenberger, C. Koh, T. Guo, H. Röst +18 more
2014Scientific Data403 citations Open access
Semantic Scholar
Rapid mass spectrometric conversion of tissue biopsy samples into permanent quantitative digital proteome maps
T. Guo, P. Kouvonen, C. Koh, Ludovic C. J. Gillet +9 more
2015Nature Medicine358 citations Open access
Semantic Scholar
Quantifying protein interaction dynamics by SWATH mass spectrometry: application to the 14-3-3 system
Ben C. Collins, Ludovic C. J. Gillet, George A. Rosenberger, H. Röst +3 more
2013Nature Methods307 citations Open access
Semantic Scholar
Building high-quality assay libraries for targeted analysis of SWATH MS data
Olga T. Schubert, Ludovic C. J. Gillet, Ben C. Collins, Pedro Navarro +7 more
2015Nature Protocols302 citations Open access
Semantic Scholar
OpenSWATH enables automated, targeted analysis of data-independent acquisition MS data
H. Röst, George A. Rosenberger, Pedro Navarro, L. Gillet +7 more
2014Nature Biotechnology278 citations Open access
Semantic Scholar
Quantitative proteomics: challenges and opportunities in basic and applied research
Olga T. Schubert, H. Röst, Ben C. Collins, George A. Rosenberger +1 more
2017Nature Protocols234 citations Open access
Semantic Scholar
Molecular Systems Biology Peer Review Process File Quantitative Variability of 342 Plasma Proteins in a Human Twin Population Transaction Report
Yan-Sheng Liu, Alfonso Buil, Ben C. Collins, Cj Ludovic +9 more
224 citations
Semantic Scholar
Absolute Proteome Composition and Dynamics during Dormancy and Resuscitation of Mycobacterium tuberculosis.
Olga T. Schubert, C. Ludwig, Maria Kogadeeva, Michael Zimmermann +8 more
2015Cell Host and Microbe215 citations Open access
Semantic Scholar
Glycoproteomic Analysis of Prostate Cancer Tissues by SWATH Mass Spectrometry Discovers N-acylethanolamine Acid Amidase and Protein Tyrosine Kinase 7 as Signatures for Tumor Aggressiveness
Yan-Sheng Liu, Jing Chen, Atul Sethi, Q. K. Li +6 more
2014Molecular & Cellular Proteomics175 citations Open access
Semantic Scholar
TRIC: an automated alignment strategy for reproducible protein quantification in targeted proteomics
H. Röst, Yan-Sheng Liu, Giuseppe D’Agostino, Matteo Zanella +7 more
2016Nature Methods173 citations Open access
Semantic Scholar
Statistical control of peptide and protein error rates in large-scale targeted DIA analyses
George A. Rosenberger, Isabell Bludau, Uwe Schmitt, M. Heusel +12 more
2017Nature Methods170 citations Open access
Semantic Scholar
Diagnostics and correction of batch effects in large‐scale proteomic studies: a tutorial
Jelena Čuklina, C. Lee, Evan G. Williams, Tatjana Sajic +9 more
2021Molecular Systems Biology150 citations Open access
Semantic Scholar
mapDIA: Preprocessing and Statistical Analysis of Quantitative Proteomics Data from Data Independent Acquisition Mass Spectrometry
Guo-Shou Teo, Sinae Kim, Chih-Chiang Tsou, Ben C. Collins +3 more
2015Journal of Proteomics147 citations Open access
Semantic Scholar
From coarse to fine: the absolute Escherichia coli proteome under diverse growth conditions
Matteo Mori, Zhong-Ge Zhang, Amir Banaei‐Esfahani, Jean-Benoît Lalanne +9 more
2021Molecular Systems Biology146 citations Open access
Semantic Scholar
Complex‐centric proteome profiling by SEC‐SWATH‐MS
M. Heusel, Isabell Bludau, George A. Rosenberger, Robin Hafen +6 more
2018bioRxiv133 citations Open access
Semantic Scholar
Inference and quantification of peptidoforms in large sample cohorts by SWATH-MS
George A. Rosenberger, Yan-Sheng Liu, H. Röst, C. Ludwig +8 more
2017Nature Biotechnology130 citations Open access
Semantic Scholar
Mass spectrometric protein maps for biomarker discovery and clinical research
Yan-Sheng Liu, Ruth Hüttenhain, Ben C. Collins, R. Aebersold
2013Expert Review of Molecular Diagnostics125 citations Open access
Semantic Scholar
Assessment of a method to characterize antibody selectivity and specificity for use in immunoprecipitation
E. Marcon, Harshika Jain, Anandi Bhattacharya, Hong-Bo Guo +40 more
2015Nature Methods122 citations
Semantic Scholar
Identification of a Set of Conserved Eukaryotic Internal Retention Time Standards for Data-independent Acquisition Mass Spectrometry*
Sarah J. Parker, Hannes Rost, George A. Rosenberger, Ben C. Collins +6 more
2015Molecular & Cellular Proteomics79 citations Open access
Semantic Scholar
Elucidation of host-pathogen protein-protein interactions to uncover mechanisms of host cell rewiring
Charlotte Nicod, Amir Banaei‐Esfahani, Ben C. Collins
2017Current Opinion in Microbiology69 citations Open access
Semantic Scholar
Systematic detection of functional proteoform groups from bottom-up proteomic datasets
Isabell Bludau, Max Frank, Christian Dörig, Yu-Jia Cai +6 more
2020Nature Communications65 citations Open access
Semantic Scholar
A Global Screen for Assembly State Changes of the Mitotic Proteome by SEC-SWATH-MS
M. Heusel, Max Frank, Mario Köhler, S. Amon +10 more
2019bioRxiv64 citations Open access
Semantic Scholar
Complex-centric proteome profiling by SEC-SWATH-MS for the parallel detection of hundreds of protein complexes
Isabell Bludau, M. Heusel, Max Frank, George A. Rosenberger +6 more
2019Nature Protocols64 citations Open access
Semantic Scholar
Applications and Developments in Targeted Proteomics: From SRM to DIA/SWATH
R. Aebersold, Ariel Bensimon, Ben C. Collins, C. Ludwig +1 more
2016Proteomics64 citations Open access
Semantic Scholar
Serum Proteomic Profiling Reveals That Pretreatment Complement Protein Levels are Predictive of Esophageal Cancer Patient Response to Neoadjuvant Chemoradiation
S. Maher, D. Mcdowell, Ben C. Collins, C. Muldoon +2 more
2011Annals of Surgery60 citations
Semantic Scholar
Comparative analysis of mRNA and protein degradation in prostate tissues indicates high stability of proteins
Wenguang Shao, T. Guo, N. Toussaint, Peng Xue +22 more
2019Nature Communications57 citations Open access
Semantic Scholar
π-HuB: the proteomic navigator of the human body
Fuchu He, Ruedi Aebersold, Mark S Baker, Xiu-Wu Bian +97 more
2024Nature47 citations Open access
Semantic Scholar
Delayed effects of transcriptional responses in Mycobacterium tuberculosis exposed to nitric oxide suggest other mechanisms involved in survival
T. Cortes, Olga T. Schubert, Amir Banaei‐Esfahani, Ben C. Collins +2 more
2017Scientific Reports47 citations Open access
Semantic Scholar
Parallel accumulation – serial fragmentation combined with data-independent acquisition (diaPASEF): Bottom-up proteomics with near optimal ion usage
F. Meier, Andreas-David Brunner, Max Frank, Annie Ha +9 more
2019bioRxiv46 citations Open access
Semantic Scholar
SECAT: Quantifying differential protein-protein interaction states by network-centric analysis
George A. Rosenberger, M. Heusel, Isabell Bludau, Ben C. Collins +6 more
2020Cell Systems39 citations Open access
Semantic Scholar
Range of protein detection by selected/multiple reaction monitoring mass spectrometry in an unfractionated human cell culture lysate
H. Ebhardt, E. Sabidó, Ruth Hüttenhain, Ben C. Collins +1 more
2012Proteomics38 citations Open access
Semantic Scholar
Integrating highly quantitative proteomics and genome-scale metabolic modeling to study pH adaptation in the human pathogen Enterococcus faecalis
Ruth Großeholz, C. Koh, Nadine Veith, Tomas Fiedler +8 more
2016npj Systems Biology and Applications37 citations Open access
Semantic Scholar
AP-SWATH Reveals Direct Involvement of VCP/p97 in Integrated Stress Response Signaling Through Facilitating CReP/PPP1R15B Degradation *
Julia Hülsmann, B. Kravić, Matthias Weith, M. Gstaiger +3 more
2018Molecular & Cellular Proteomics35 citations Open access
Semantic Scholar
The Protein Landscape of Chronic Lymphocytic Leukemia (CLL).
F. Meier-Abt, Jun-Yan Lu, E. Cannizzaro, Marcel F Pohly +16 more
2021Blood32 citations Open access
Semantic Scholar
Precise Temporal Profiling of Signaling Complexes in Primary Cells Using SWATH Mass Spectrometry
E. Caron, Romain Roncagalli, T. Hase, W. Wolski +16 more
2017Cell Reports32 citations Open access
Semantic Scholar
Multilayered regulation of autophagy by the Atg1 kinase orchestrates spatial and temporal control of autophagosome formation
Anne Schreiber, Ben C. Collins, Colin Davis, R. Enchev +4 more
2021Molecules and Cells31 citations Open access
Semantic Scholar
Systems Proteomics Approaches to Study Bacterial Pathogens: Application to Mycobacterium tuberculosis
Amir Banaei‐Esfahani, Charlotte Nicod, R. Aebersold, Ben C. Collins
2017Current Opinion in Microbiology31 citations Open access
Semantic Scholar
Development of a Pharmaceutical Hepatotoxicity Biomarker Panel Using a Discovery to Targeted Proteomics Approach*
Ben C. Collins, C. Miller, Alexandra Sposny, Phillip Hewitt +3 more
2012Molecular & Cellular Proteomics29 citations Open access
Semantic Scholar
Sequence tagging reveals unexpected modifications in toxicoproteomics
S. Dasari, Matthew C. Chambers, Simona G. Codreanu, D. Liebler +4 more
2011Chemical Research in Toxicology28 citations Open access
Semantic Scholar
Rapid Profiling of Protein Complex Reorganization in Perturbed Systems
Isabell Bludau, Charlotte Nicod, C. Martelli, Peng Xue +6 more
2021bioRxiv25 citations Open access
Semantic Scholar
Use of proteomics for the discovery of early markers of drug toxicity
Ben C. Collins, Ambrose Clarke, N. Kitteringham, W. Gallagher +1 more
2007Expert Opinion on Drug Metabolism & Toxicology24 citations
Semantic Scholar
Expression Dysregulation as a Mediator of Fitness Costs in Antibiotic Resistance
Andrej Trauner, Amir Banaei‐Esfahani, Sebastian M. Gygli, Philipp Warmer +7 more
2021Antimicrobial Agents and Chemotherapy23 citations Open access
Semantic Scholar
Publisher Correction: OpenSWATH enables automated, targeted analysis of data-independent acquisition MS data
H. Röst, George A. Rosenberger, Pedro Navarro, Ludovic C. J. Gillet +7 more
2020Nature Biotechnology22 citations Open access
Semantic Scholar
A gas phase fractionation acquisition scheme integrating ion mobility for rapid diaPASEF library generation
J. Penny, Mohammad Arefian, Gunnar N. Schroeder, J. Bengoechea +1 more
2022bioRxiv20 citations Open access
Semantic Scholar
System-Wide Profiling of Protein Complexes Via Size Exclusion Chromatography-Mass Spectrometry (SEC-MS).
A. Fossati, Fabian Frommelt, Federico Uliana, C. Martelli +5 more
2021Methods in molecular biology18 citations
Semantic Scholar
In Vivo and in Vitro Proteome Analysis of Human Immunodeficiency Virus (HIV)-1-infected, Human CD4+ T Cells*
J. Nemeth, Valentina Vongrad, K. Metzner, Victoria P. Strouvelle +5 more
2017Molecular & Cellular Proteomics16 citations Open access
Semantic Scholar
Use of SELDI MS to discover and identify potential biomarkers of toxicity in InnoMed PredTox: A multi‐site, multi‐compound study
Ben C. Collins, Alexandra Sposny, D. McCarthy, A. Brandenburg +5 more
2010Proteomics15 citations Open access
Semantic Scholar

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R. Aebersold×39
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George A. Rosenberger×19
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George A. Rosenberger — researcher profile on SciRah
H. Röst×13
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Yan-Sheng Liu×12
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Yan-Sheng Liu — researcher profile on SciRah

Ludovic C. J. Gillet

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M. Heusel — researcher profile on SciRah

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Max Frank — researcher profile on SciRah

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C. Ludwig — researcher profile on SciRah