Michael R Hoopmann

ORCID

Publication Activity (10 Years)

Years Active: 2018-2023
Publications (10 Years): 25

Top Venues

Journal of proteome research

Analytical chemistry

GeroScience

PLoS pathogens

Institute for Systems Biology

University of Washington (PHD)

This page only lists publications with an associated author ORCID identifier.

Affiliation History

Institute for Systems Biology

United States

Senior Research Scientist :: Moritz Lab (Proteomics)

Education History

University of Washington

United States

PHD :: Genome Sciences

The College of New Jersey

United States

BSC :: Biology

Publications

Michael R Hoopmann, David D Shteynberg, Alex Zelter, Michael Riffle, Andrew S Lyon, David A Agard, Qing Luan, Brad J Nolen, Michael J MacCoss, Trisha N Davis, Robert L Moritz
Improved Analysis of Cross-Linking Mass Spectrometry Data with Kojak 2.0, Advanced by Integration into the Trans-Proteomic Pipeline. Journal of proteome research 22 (2) (2023)
Eric W Deutsch, Luis Mendoza, David D Shteynberg, Michael R Hoopmann, Zhi Sun, Jimmy K Eng, Robert L Moritz
Trans-Proteomic Pipeline: Robust Mass Spectrometry-Based Proteomics Data Analysis Suite. Journal of proteome research 22 (2) (2023)
Michael R Hoopmann, David D Shteynberg, Alex Zelter, Michael Riffle, Andrew S Lyon, David A Agard, Qing Luan, Brad J Nolen, Michael J MacCoss, Trisha N Davis, Robert L Moritz
Improved Analysis of Cross-Linking Mass Spectrometry Data with Kojak 2.0, Advanced by Integration into the Trans-Proteomic Pipeline. Journal of proteome research 22 (2) (2023)
Adam R Burns, Jack Wiedrick, Alicia Feryn, David H Baxter, Mukul K Midha, Seamus R Morrone, Seamus R Morrone, Timothy J Prokop, Michal Maes, Michael R Hoopmann, Ulrike Kusebauch, Eric W Deutsch, Noa Rappaport, Kengo Watanabe, Robert L Moritz, Richard A Miller, Jodi A Lapidus, Eric S Orwoll
Proteomic changes induced by longevity-promoting interventions in mice. GeroScience (2023)
Eric W Deutsch, Luis Mendoza, David D Shteynberg, Michael R Hoopmann, Zhi Sun, Jimmy K Eng, Robert L Moritz
Trans-Proteomic Pipeline: Robust Mass Spectrometry-Based Proteomics Data Analysis Suite. Journal of proteome research 22 (2) (2023)
Eric W Deutsch, Luis Mendoza, David D Shteynberg, Michael R Hoopmann, Zhi Sun, Jimmy K Eng, Robert L Moritz
Trans-Proteomic Pipeline: Robust Mass Spectrometry-Based Proteomics Data Analysis Suite. Journal of proteome research (2023)
Michael R Hoopmann, David D Shteynberg, Alex Zelter, Michael Riffle, Andrew S Lyon, David A Agard, Qing Luan, Brad J Nolen, Michael J MacCoss, Trisha N Davis, Robert L Moritz
Improved Analysis of Cross-Linking Mass Spectrometry Data with Kojak 2.0, Advanced by Integration into the Trans-Proteomic Pipeline. Journal of proteome research 22 (2) (2023)
Michael R Hoopmann, Veit Schwämmle, Magnus Palmblad
2023 Special Issue on Software Tools and Resources: Accelerating Research with New and Evolving Open Source Software. Journal of proteome research 22 (2) (2023)
Michael R Hoopmann, David D Shteynberg, Alex Zelter, Michael Riffle, Andrew S Lyon, David A Agard, Qing Luan, Brad J Nolen, Michael J MacCoss, Trisha N Davis, Robert L Moritz
Improved Analysis of Cross-Linking Mass Spectrometry Data with Kojak 2.0, Advanced by Integration into the Trans-Proteomic Pipeline. Journal of proteome research (2023)
Eric W Deutsch, Luis Mendoza, David D Shteynberg, Michael R Hoopmann, Zhi Sun, Jimmy K Eng, Robert L Moritz
Trans-Proteomic Pipeline: Robust Mass Spectrometry-Based Proteomics Data Analysis Suite. Journal of proteome research 22 (2) (2023)
Michael R Hoopmann, David D Shteynberg, Alex Zelter, Michael Riffle, Andrew S Lyon, David A Agard, Qing Luan, Brad J Nolen, Michael J MacCoss, Trisha N Davis, Robert L Moritz
Improved Analysis of Cross-Linking Mass Spectrometry Data with Kojak 2.0, Advanced by Integration into the Trans-Proteomic Pipeline. Journal of proteome research 22 (2) (2023)
Michael R Hoopmann, Veit Schwämmle, Magnus Palmblad
2023 Special Issue on Software Tools and Resources: Accelerating Research with New and Evolving Open Source Software. Journal of proteome research 22 (2) (2023)
Michael Riffle, Michael R Hoopmann, Daniel Jaschob, Guo Zhong, Robert L Moritz, Michael J MacCoss, Trisha N Davis, Nina Isoherranen, Alex Zelter
Discovery and Visualization of Uncharacterized Drug-Protein Adducts Using Mass Spectrometry. Analytical chemistry 94 (8) (2022)
Susan T Weintraub, Michael R Hoopmann, Magnus Palmblad
2021 Special Issue on Software Tools and Resources: Finding the Right Tools for the Job. Journal of proteome research 20 (4) (2021)
Sudhir Kumar, Meseret T Haile, Michael R Hoopmann, Linh T Tran, Samantha A Michaels, Seamus R Morrone, Kayode K Ojo, Laura M Reynolds, Ulrike Kusebauch, Ashley M Vaughan, Robert L Moritz, Stefan H I Kappe, Kristian E Swearingen
Plasmodium falciparum Calcium-Dependent Protein Kinase 4 is Critical for Male Gametogenesis and Transmission to the Mosquito Vector. mBio (2021)
Vidur Kailash, Luis Mendoza, Robert L Moritz, Michael R Hoopmann
SPACEPro: A Software Tool for Analysis of Protein Sample Cleavage for Tandem Mass Spectrometry. Journal of proteome research 20 (4) (2021)
David W Cobb, Heather M Kudyba, Alejandra Villegas, Michael R Hoopmann, Rodrigo de Paula Baptista, Baylee Bruton, Michelle Krakowiak, Robert L Moritz, Vasant Muralidharan
A redox-active crosslinker reveals an essential and inhibitable oxidative folding network in the endoplasmic reticulum of malaria parasites. PLoS pathogens 17 (2) (2021)
Susana Martínez Arbas, Shaman Narayanasamy, Malte Herold, Laura A Lebrun, Michael R Hoopmann, Sujun Li, Tony J Lam, Benoit Josef Kunath, Nathan D Hicks, Cindy Meng-Hsin Liu, Lance B Price, Cédric Christian Laczny, John D Gillece, James M Schupp, Paul S Keim, Robert L Moritz, Karoline Faust, Haixu Tang, Yuzhen Ye, Alexander Skupin, Patrick May, Emilie E L Muller, Paul Wilmes
Roles of bacteriophages, plasmids and CRISPR immunity in microbial community dynamics revealed using time-series integrated meta-omics. Nature microbiology 6 (1) (2020)
Michael R Hoopmann, Ulrike Kusebauch, Magnus Palmblad, Nuno Bandeira, David D Shteynberg, Lingjie He, Bin Xia, Stoyan H Stoychev, Gilbert S Omenn, Susan T Weintraub, Robert L Moritz
Insights from the First Phosphopeptide Challenge of the MS Resource Pillar of the HUPO Human Proteome Project. Journal of proteome research 19 (12) (2020)
Mukul K Midha, David S Campbell, Michal Maes, Ulrike Kusebauch, Michael R Hoopmann, Samuel L Bader, Robert L Moritz
DIALib-QC an assessment tool for spectral libraries in data-independent acquisition proteomics. Nature communications 11 (1) (2020)
Susan T Weintraub, Michael R Hoopmann, Magnus Palmblad
Special Issue on Software Tools and Resources: Acknowledging the Toolmakers of Science. Journal of proteome research 18 (2) (2020)
David D Shteynberg, Eric W Deutsch, David S Campbell, Michael R Hoopmann, Ulrike Kusebauch, Dave Lee, Luis Mendoza, Mukul K Midha, Zhi Sun, Anthony D Whetton, Robert L Moritz
PTMProphet: Fast and Accurate Mass Modification Localization for the Trans-Proteomic Pipeline. Journal of proteome research 18 (12) (2019)
Claudio Iacobucci, Christine Piotrowski, Ruedi Aebersold, Bruno C Amaral, Philip Andrews, Katja Bernfur, Christoph H Borchers, Nicolas I Brodie, James E Bruce, Yong Cao, Stéphane Chaignepain, Juan D Chavez, Stéphane Claverol, Juergen Cox, Trisha Davis, Gianluca Degliesposti, Meng-Qiu Dong, Nufar Edinger, Cecilia Emanuelsson, Marina Gay, Michael Götze, Francisco Gomes-Neto, Fabio César Gozzo, Craig Gutierrez, Caroline Haupt, Albert J R Heck, Franz Herzog, Lan Huang, Michael R Hoopmann, Nir Kalisman, Oleg Klykov, Zdeněk Kukačka, Fan Liu, Michael J MacCoss, Karl Mechtler, Ravit Mesika, Robert L Moritz, Nagarjuna Nagaraj, Victor Nesati, Ana G C Neves-Ferreira, Robert Ninnis, Petr Novák, Francis J O'Reilly, Matthias Pelzing, Evgeniy Petrotchenko, Lolita Piersimoni, Manolo Plasencia, Tara Louise Pukala, Kasper Dyrberg Rand, Juri Rappsilber, Dana Reichmann, Carolin Sailer, Chris P Sarnowski, Richard A Scheltema, Carla Schmidt, David C Schriemer, Yi Shi, J Mark Skehel, Moriya Slavin, Frank Sobott, Victor Solis-Mezarino, Heike Stephanowitz, Florian Stengel, Christian E Stieger, Esben Trabjerg, Michael Trnka, Marta Vilaseca, Rosa Viner, Yufei Xiang, Sule Yilmaz, Alex Zelter, Daniel Ziemianowicz, Alexander Leitner, Andrea Sinz
First Community-Wide, Comparative Cross-Linking Mass Spectrometry Study. Analytical chemistry 91 (11) (2019)
Matthew The, Fredrik Edfors, Yasset Perez Riverol, Samuel H Payne, Michael R Hoopmann, Magnus Palmblad, Björn Forsström, Lukas Käll
A Protein Standard That Emulates Homology for the Characterization of Protein Inference Algorithms. Journal of proteome research 17 (5) (2018)
Michael R Hoopmann, Jason M Winget, Luis Mendoza, Robert L Moritz
StPeter: Seamless Label-Free Quantification with the Trans-Proteomic Pipeline. Journal of proteome research 17 (3) (2018)

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Publication Activity (10 Years)

Top Topics

Top Venues

Michael R Hoopmann