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Eric W. Deutsch

Institute for Systems Biology

78H-index
340Paper Count
3.3WCitation Count
Published Papers 179
Publication Date
AI proteomics: from protein identification to virtual cells
err2026-07-28
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PREAI
errYingying Sun; Jun A; Zhiwei Liu; Rui Sun; Liujia Qian; Samuel H. Payne; Wout Bittremieux; Markus Ralser; Chen Li; Yi Chen; Zhen Dong; Yasset Perez-Riverol; Asif Khan; Chris Sander; Ruedi Aebersold; Juan Antonio Vizcaíno; Jonathan R. Krieger; Jianhua Yao; Wen Han; Linfeng Zhang; Yunping Zhu; Yue Xuan; Benjamin Boyang Sun; Liang Qiao; Henning Hermjakob; Haixu Tang; Huanhuan Gao; Yamin Deng; Qing Zhong; Cheng Chang; Nuno Bandeira; Ming Li; Weinan E; Siqi Sun; Yuedong Yang; Gilbert S. Omenn; Yue Zhang; Ping Xu; Yan Fu; Xiaowen Liu; Christopher M. Overall; Yu Wang; Eric W. Deutsch; Luonan Chen; Jürgen Cox; Vadim Demichev; Fuchu He; Jiaxing Huang; Huilin Jin; Chao Liu; Nan Li; Zhongzhi Luan; Jiangning Song; Kaicheng Yu; Wanggen Wan; Tai Wang; Kang Zhang; Le Zhang; Peter A. Bell; Matthias Mann; Bing Zhang; Tiannan Guo
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Author Correction: Community benchmarking and evaluation of human unannotated microprotein detection by mass spectrometry based proteomics
err2026-06-02
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errOAAI
errAaron Wacholder; Eric W. Deutsch; Leron W. Kok; Jip T. van Dinter; Jiwon Lee; James C. Wright; Sebastien Leblanc; Ayodya H. Jayatissa; Kevin Jiang; Ihor Arefiev; Kevin Cao; Francis Bourassa; Felix-Antoine Trifiro; Michal Bassani-Sternberg; Pavel V. Baranov; Annelies Bogaert; Sonia Chothani; Ivo Fierro-Monti; Daria Fijalkowska; Kris Gevaert; Norbert Hubner; Jonathan M. Mudge; Jorge Ruiz-Orera; Jana Schulz; Juan Antonio Vizcaíno; John R. Prensner; Marie A. Brunet; Thomas F. Martinez; Sarah A. Slavoff; Xavier Roucou; Jyoti S. Choudhary; Sebastiaan van Heesch; Robert L. Moritz; Anne-Ruxandra Carvunis
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An AI-Ready Phosphorylation Meta-Analysis for Saccharomyces cerevisiae
err2026-05-04
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errOAAI
errEllen L Boswell; Kerry A Ramsbottom; Jun Fan; Yasset Perez-Riverol; Emily H Bowler-Barnett; Zhi Sun; Shahram Mesdaghi; Daniel J Rigden; Maria J Martin; Eric W Deutsch; Juan Antonio Vizcaíno; Andrew R Jones
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Expanding the human proteome with microproteins and peptideins
errNature
IF48.5
err2026-05-01
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PREAI
errDeutsch, Eric W.; Kok, Leron W.; Mudge, Jonathan M.; Valls, Cristian F.; Jungreis, Irwin; Ruiz-Orera, Jorge; Sun, Zhi; Kusebauch, Ulrike; Fierro-Monti, Ivo; Abelin, Jennifer G.; Alba, M. Mar; Aspden, Julie L.; Bandyopadhyay, Sreejan; Banerjee, Kaushik; Baranov, Pavel V.; Bazzini, Ariel A.; Bourassa, Francis; Bruford, Elspeth A.; Calviello, Lorenzo; Carr, Steven A.; Carvunis, Anne-Ruxandra; Chothani, Sonia; Clauwaert, Jim; Dean, Kellie; Faridi, Pouya; Frankish, Adam; Goodale, Amy; Green, Thomas; Hubner, Norbert; Ingolia, Nicholas T.; Kellis, Manolis; Magrane, Michele; Martin, Maria Jesus; Martinez, Thomas F.; Menschaert, Gerben; Ohler, Uwe; Orchard, Sandra; Potter, Alisa; Rackham, Owen J. L.; Rees, Matthew G.; Root, David E.; Roth, Jennifer A.; Roucou, Xavier; Sialana, Fernando J.; Slavoff, Sarah A.; Swirski, Michal I.; Tierney, Jack A. S.; Trifiro, Felix-Antoine; Valen, Eivind; Vasylieva, Valeriia; Wacholder, Aaron; Wang, Shengbo; Wang, Li; Weissman, Jonathan S.; Wu, Wei; Choudhary, Jyoti S.; Bassani-Sternberg, Michal; Vizcaino, Juan Antonio; Ternette, Nicola; Brunet, Marie A.; Moritz, Robert L.; Prensner, John R.; van Heesch, Sebastiaan
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A landscape analysis of human SUMOylation
err2026-04-20
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errOAAI
errShireen S. Al-Momani; Kerry Rambsbottom; Andrew Collins; Ellen Boswell; Ivo Alexander Hendriks; Michael L. Nielsen; Alfred C.O. Vertegaal; Ronald T. Hay; Zhi Sun; Yasset Perez Riverol; Emily H. Bowler-Barnett; Maria J. Martin; Jun Fan; Ari Sadanandom; Eric W. Deutsch; Juan Antonio Vizcaíno; Andrew R. Jones
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Automated Metadata Extraction from mzML Files with RunAssessor
err2026-04-16
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PREAI
errMarie Andken; Clarissa Zheng; Zhi Sun; Eric W. Deutsch
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An expanded reference catalog of translated open reading frames for biomedical research
err2026-04-13
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PREAI
errChothani, Sonia; Ruiz-Orera, Jorge; Tierney, Jack A. S.; Swirski, Michal, I; Tjeldnes, Hakon; Kok, Leron W.; Clauwaert, Jim; Deutsch, Eric W.; Alba, M. Mar; Aspden, Julie L.; Baranov, Pavel, V; Bazzini, Ariel Alejandro; Bruford, Elspeth A.; Brunet, Marie A.; Cardon, Tristan; Carvunis, Anne-Ruxandra; Casola, Claudio; Choudhary, Jyoti Sharma; Dean, Kellie; Faridi, Pouya; Fierro-Monti, Ivo; Fournier, Isabelle; Frankish, Adam; Gerstein, Mark; Hubner, Norbert; Jiang, Yunzhe; Kellis, Manolis; Martinez, Thomas F.; Menschaert, Gerben; Ni, Pengyu; Orchard, Sandra; Roucou, Xavier; Rozowsky, Joel; Salzet, Michel; Siragusa, Mauro; Slavoff, Sarah; Ternette, Nicola; Vizcaino, Juan Antonio; Wacholder, Aaron; Wu, Wei; Xie, Zhi; Yang, Yucheng T.; Moritz, Robert L.; Valen, Eivind; Mudge, Jonathan; van Heesch, Sebastiaan; Prensner, John R.; Rackham, Owen J. L.
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A Labrador PeptideAtlas and DIA spectral assay library - resources for proteomics research in dogs
err2026-04-02
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errOAAI
errUlrike Kusebauch; Zhi Sun; Mukul K. Midha; Charu Kapil; Michal Maes; David H. Baxter; Seamus R. Morrone; Panga J. Reddy; Ciaran O’Flynn; Phillip Watson; Eric W. Deutsch; David Allaway; Robert L. Moritz
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The Escherichia coli PeptideAtlas Build: Characterizing the Observed Escherichia coli Pan-Proteome and Its Post-Translational Modifications
err2026-01-22
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errOAAI
errCaroline Jachmann; Zhi Sun; Kevin Velghe; Florence Arsène-Ploetze; Aurélie Hirschler; Jasper Zuallaert; Christine Carapito; Robbin Bouwmeester; Kay Nieselt; Eric W. Deutsch; Lennart Martens; Ralf Gabriels; Tim Van Den Bossche
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Community benchmarking and evaluation of human unannotated microprotein detection by mass spectrometry based proteomics
err2026-01-21
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errOAAI
errAaron Wacholder; Eric W. Deutsch; Leron W. Kok; Jip T. van Dinter; Jiwon Lee; James C. Wright; Sebastien Leblanc; Ayodya H. Jayatissa; Kevin Jiang; Ihor Arefiev; Kevin Cao; Francis Bourassa; Felix-Antoine Trifiro; Michal Bassani-Sternberg; Pavel V. Baranov; Annelies Bogaert; Sonia Chothani; Ivo Fierro-Monti; Daria Fijalkowska; Kris Gevaert; Norbert Hubner; Jonathan M. Mudge; Jorge Ruiz-Orera; Jana Schulz; Juan Antonio Vizcaíno; John R. Prensner; Marie A. Brunet; Thomas F. Martinez; Sarah A. Slavoff; Xavier Roucou; Jyoti S. Choudhary; Sebastiaan van Heesch; Robert L. Moritz; Anne-Ruxandra Carvunis
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The 2025 Report on the Human Proteome from the HUPO Human Proteome Project
err2026-01-05
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PREAI
errEric W. Deutsch; Cecilia Lindskog; Bogdan Budnik; Claudia Ctortecka; Tiannan Guo; Charles Pineau; Gong Zhang; Marie Andken; Clarissa Zheng; Zhi Sun; Jonathan M. Mudge; Sandra Orchard; Christopher M. Overall; Nicolle H. Packer; Susan T. Weintraub; Michael H. A. Roehrl; Edouard Nice; Jennifer E. Van Eyk; Uwe Völker; Nuno Bandeira; Ruedi Aebersold; Robert L. Moritz; Gilbert S. Omenn
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The PanOryza pangene catalog of Asian cultivated rice
err2026-01-01
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PREAI
errContreras-Moreira, Bruno; Sharma, Eshan; Saraf, Shradha; Naamati, Guy; Gupta, Parul; Elser, Justin; Chebotarov, Dmytro; Chougule, Kapeel; Lu, Zhenyuan; Wei, Sharon; Olson, Andrew; Tsang, Ian; Lodha, Disha; Zhou, Yong; Yu, Zhichao; Zhao, Wen; Zhang, Jianwei; Amberkar, Sandeep; Sue-Ob, Kawinnat; Sun, Zhi; Martin, Maria; McNally, Kenneth L.; Ware, Doreen; Deutsch, Eric W.; Copetti, Dario; Wing, Rod A.; Jaiswal, Pankaj; Dyer, Sarah; Jones, Andrew R.
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The ProteomeXchange consortium in 2026: making proteomics data FAIR
err2025-11-01
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PREAI
errDeutsch, Eric W.; Bandeira, Nuno; Perez-Riverol, Yasset; Sharma, Vagisha; Carver, Jeremy j; Mendoza, Luis; Kundu, Deepti J.; Bandla, Chakradhar; Kamatchinathan, Selvakumar; Hewapathirana, Suresh; Sun, Zhi; Kawano, Shin; Okuda, Shujiro; Connolly, Brian; Maclean, Brendan; Maccoss, Michael J.; Chen, Tao; Zhu, Yunping; Ishihama, Yasushi; Vizcaino, Juan Antonio
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Announcing the Biomedical Data Translator: Initial Public Release
err2025-07-09
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errOAAI
errKaramarie Fecho; Gwênlyn Glusman; Sergio E. Baranzini; Chris Bizon; Matthew Brush; William Byrd; Lawrence Chung; Andrew Crouse; Eric Deutsch; Michel Dumontier; Aleksandra Foksinska; Jennifer Hadlock; Kaiwen He; Sui Huang; Robert Hubal; Gregory M. Hyde; Sharat Israni; Kelyne Kenmogne; David Koslicki; Jana Dorfman Marcette; Ewy A. Mathe; Abrar Mesbah; Sierra A. T. Moxon; Christopher J. Mungall; John Osborne; Carrie Pasfield; Guangrong Qin; Stephen A. Ramsey; Justin Reese; Jared C. Roach; Reese Rose; Karthik Soman; Andrew I. Su; Casey Ta; Gaurav Vaidya; Rosina Weber; Qi Wei; Mark Williams; Chunlei Wu; Colleen Xu; Chase Yakaboski; The Biomedical Data Translator Consortium
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Quetzal: Comprehensive Peptide Fragmentation Annotation and Visualization
err2025-03-20
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PREAI
errDeutsch, Eric W.; Mendoza, Luis; Moritz, Robert L.
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Candida albicans: A Comprehensive View of the Proteome
err2025-03-01
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PREAI
errGomez-Artiguez, Leticia; de la Camara-fuentes, Samuel; Sun, Zhi; Hernaez, Maria Luisa; Borrajo, Ana; Pitarch, Aida; Molero, Gloria; Monteoliva, Lucia; Moritz, Robert L.; Deutsch, Eric W.; Gil, Concha
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Searching for Sulfotyrosines (sY) in a HA(pY)STACK
err2025-02-05
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errOAAI
errTzvetkov, Jordan; Eyers, Claire E.; Eyers, Patrick A.; Ramsbottom, Kerry A.; Oswald, Sally O.; Harris, John A.; Sun, Zhi; Deutsch, Eric W.; Jones, Andrew R.
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The Proteomics Standards Initiative Standardized Formats for Spectral Libraries and Fragment Ion Peak Annotations: mzSpecLib and mzPAF
err2024-11-08
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errOAAI
errKlein, Joshua; Lam, Henry; Mak, Tytus D.; Bittremieux, Wout; Perez-Riverol, Yasset; Gabriels, Ralf; Shofstahl, Jim; Hecht, Helge; Binz, Pierre-Alain; Kawano, Shin; Van Den Bossche, Tim; Carver, Jeremy; Neely, Benjamin A.; Mendoza, Luis; Suomi, Tomi; Claeys, Tine; Payne, Thomas; Schulte, Douwe; Sun, Zhi; Hoffmann, Nils; Zhu, Yunping; Neumann, Steffen; Jones, Andrew R.; Bandeira, Nuno; Vizcaino, Juan Antonio; Deutsch, Eric W.
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The 2024 Report on the Human Proteome from the HUPO Human Proteome Project
err2024-11-08
err0
PREAI
errOmenn, Gilbert S.; Orchard, Sandra; Lane, Lydie; Lindskog, Cecilia; Pineau, Charles; Overall, Christopher M.; Budnik, Bogdan; Mudge, Jonathan M.; Packer, Nicolle H.; Weintraub, Susan T.; Roehrl, Michael H. A.; Nice, Edouard; Guo, Tiannan; Van Eyk, Jennifer E.; Voelker, Uwe; Zhang, Gong; Bandeira, Nuno; Aebersold, Ruedi; Moritz, Robert L.; Deutsch, Eric W.
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The Circulating Proteome-Technological Developments, Current Challenges, and Future Trends
err2024-10-31
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errOAAI
errGeyer, Philipp E.; Hornburg, Daniel; Pernemalm, Maria; Hauck, Stefanie M.; Palaniappan, Krishnan K.; Albrecht, Vincent; Dagley, Laura F.; Moritz, Robert L.; Yu, Xiaobo; Edfors, Fredrik; Vandenbrouck, Yves; Mueller-Reif, Johannes B.; Sun, Zhi; Brun, Virginie; Ahadi, Sara; Omenn, Gilbert S.; Deutsch, Eric W.; Schwenk, Jochen M.
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