Michael R. Hoopmann
TitleCited byYear
Comet: An open‐source MS/MS sequence database search tool
JK Eng, TA Jahan, MR Hoopmann
Proteomics 13 (1), 22-24, 2013
5762013
Human SRMAtlas: A Resource of Targeted Assays to Quantify the Complete Human Proteome
U Kusebauch, DS Campbell, EW Deutsch, CS Chu, DA Spicer, ...
Cell 166 (3), 766-778, 2016
1822016
High-speed data reduction, feature detection, and MS/MS spectrum quality assessment of shotgun proteomics data sets using high-resolution mass spectrometry
MR Hoopmann, GL Finney, MJ MacCoss
Analytical chemistry 79 (15), 5620-5632, 2007
1592007
Comparison of database search strategies for high precursor mass accuracy MS/MS data
EJ Hsieh, MR Hoopmann, B MacLean, MJ MacCoss
Journal of proteome research 9 (2), 1138-1143, 2009
1232009
Deconvolution of mixture spectra from ion-trap data-independent-acquisition tandem mass spectrometry
M Bern, G Finney, MR Hoopmann, G Merrihew, MJ Toth, MJ MacCoss
Analytical chemistry 82 (3), 833-841, 2009
1222009
The 5300-year-old Helicobacter pylori genome of the Iceman
F Maixner, B Krause-Kyora, D Turaev, A Herbig, MR Hoopmann, ...
Science 351 (6269), 162-165, 2016
1162016
The state of the human proteome in 2012 as viewed through PeptideAtlas
T Farrah, EW Deutsch, MR Hoopmann, JL Hallows, Z Sun, CY Huang, ...
Journal of proteome research 12 (1), 162-171, 2012
1122012
Cross-linking measurements of in vivo protein complex topologies
C Zheng, L Yang, MR Hoopmann, JK Eng, X Tang, CR Weisbrod, ...
Molecular & Cellular Proteomics 10 (10), M110. 006841, 2011
892011
Kojak: efficient analysis of chemically cross-linked protein complexes
MR Hoopmann, A Zelter, RS Johnson, M Riffle, MJ MacCoss, TN Davis, ...
Journal of proteome research 14 (5), 2190-2198, 2015
862015
Accurate peptide fragment mass analysis: multiplexed peptide identification and quantification
CR Weisbrod, JK Eng, MR Hoopmann, T Baker, JE Bruce
Journal of proteome research 11 (3), 1621-1632, 2012
852012
Assessing the dynamic range and peak capacity of nanoflow LC− FAIMS− MS on an ion trap mass spectrometer for proteomics
JD Canterbury, X Yi, MR Hoopmann, MJ MacCoss
Analytical chemistry 80 (18), 6888-6897, 2008
792008
Label-free comparative analysis of proteomics mixtures using chromatographic alignment of high-resolution μLC-MS data
GL Finney, AR Blackler, MR Hoopmann, JD Canterbury, CC Wu, ...
Analytical chemistry 80 (4), 961-971, 2008
702008
Crux: rapid open source protein tandem mass spectrometry analysis
S McIlwain, K Tamura, A Kertesz-Farkas, CE Grant, B Diament, B Frewen, ...
Journal of proteome research 13 (10), 4488-4491, 2014
692014
A Deeper Look into Comet—Implementation and Features
JK Eng, MR Hoopmann, TA Jahan, JD Egertson, WS Noble, MJ MacCoss
Journal of The American Society for Mass Spectrometry 26 (11), 1865-1874, 2015
652015
The fasted/fed mouse metabolic acetylome: N6-acetylation differences suggest acetylation coordinates organ-specific fuel switching
L Yang, B Vaitheesvaran, K Hartil, AJ Robinson, MR Hoopmann, JK Eng, ...
Journal of proteome research 10 (9), 4134-4149, 2011
622011
Post analysis data acquisition for the iterative MS/MS sampling of proteomics mixtures
MR Hoopmann, GE Merrihew, PD Von Haller, MJ MacCoss
Journal of proteome research 8 (4), 1870-1875, 2009
572009
Hydra: a scalable proteomic search engine which utilizes the Hadoop distributed computing framework
S Lewis, A Csordas, S Killcoyne, H Hermjakob, MR Hoopmann, RL Moritz, ...
BMC bioinformatics 13 (1), 324, 2012
562012
Community-integrated omics links dominance of a microbial generalist to fine-tuned resource usage
EEL Muller, N Pinel, CC Laczny, MR Hoopmann, S Narayanasamy, ...
Nature communications 5, 5603, 2014
502014
Identification of ejaculated proteins in the house mouse (Mus domesticus) via isotopic labeling
MD Dean, GD Findlay, MR Hoopmann, CC Wu, MJ MacCoss, ...
BMC genomics 12 (1), 306, 2011
482011
Current algorithmic solutions for peptide-based proteomics data generation and identification
MR Hoopmann, RL Moritz
Current Opinion in Biotechnology, 2012
392012
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Articles 1–20