Michael R. Hoopmann
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Comet: An open‐source MS/MS sequence database search tool
JK Eng, TA Jahan, MR Hoopmann
Proteomics 13 (1), 22-24, 2013
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
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
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
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
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, 2010
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, 2010
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
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, 2013
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
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
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), 2011
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
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
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
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 (1), 1-10, 2014
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), 1-6, 2012
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
Comparative integrated omics: identification of key functionalities in microbial community-wide metabolic networks
H Roume, A Heintz-Buschart, EEL Muller, P May, VP Satagopam, ...
Npj Biofilms And Microbiomes 1, 2015
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), 1-13, 2011
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Articles 1–20