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Henning Hermjakob

European Bioinformatics Institute

96H-index
467Paper Count
9.1WCitation Count
Published Papers 193
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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The Potential of Digital Twins for Pediatric Rare Diseases
err2026-03-31
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errOAAI
errMalik-sheriff, Rahuman S.; Limdi, Anurag; Petsalaki, Evangelia; Hermjakob, Henning; McDonagh, Ellen M.
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From FAIR to CURE: guidelines for computational models of biological systems
err2026-03-27
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errOAAI
errHerbert M. Sauro; Eran Agmon; Michael L. Blinov; John H. Gennari; Joseph L. Hellerstein; Adel Heydarabadipour; Bartholomew E. Jardine; Elebeoba May; David P. Nickerson; Lucian P. Smith; Gary D. Bader; Frank T. Bergmann; Patrick M. Boyle; Andreas Dräger; James R. Faeder; Song Feng; Juliana Freire; Fabian Fröhlich; James A. Glazier; Thomas E. Gorochowski; Tomas Helikar; Henning Hermjakob; Stefan Hoops; Peter Hunter; Princess I. Imoukhuede; Sarah M. Keating; Matthias König; Reinhard Laubenbacher; Leslie M. Loew; Carlos F. Lopez; William W. Lytton; Rahuman S. Malik-Sheriff; Andrew McCulloch; Pedro Mendes; Lealem Mulugeta; Chris J. Myers; Jerry G. Myers Jr; Anna Niarakis; David D. van Niekerk; Brett G. Olivier; Alexander A. Patrie; Ellen M. Quardokus; Nicole Radde; Johann M. Rohwer; Sven Sahle; James C. Schaff; Falk Schreiber; T. J. Sego; Janis Shin; Jacky L. Snoep; Rajanikanth Vadigepalli; H. Steven Wiley; Dagmar Waltemath; Ion I. Moraru
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The 2025 Westlake Autumn Symposium for Al Proteomics and Virtual Cell
err2026-03-07
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errOAAI
errRui Sun; Ruedi Aebersold; Qi Xiao; Matthias Mann; Yan Zhou; Albert J R Heck; Yingrui Wang; Uwe Völker; Xue Cai; Charles Boone; Zizhuo Zhou; Ming Li; Zhen Dong; Brenda Andrews; Shuaiyao Wang; Joseph Schacherer; Connie Jimenez; Bernd Wollscheid; Liang Yue; Ben C Collins; Heng Jiang; Dong Wang; Liujia Qian; Jia-Xing Yue; Yingying Sun; Edouard Nice; Xiaofan Zhang; Yasset Perez-Riverol; A Jun; Chris Sander; Henning Hermjakob; Wout Bittremieux; Wilson Goh Wen Bin; Ge Gao; Peijie Zhou; Siqi Sun; Han Wen; Ziyan Xu; Tiannan Guo
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Verification and reproducible curation of the BioModels repository
err2025-12-01
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PREAI
errSmith, Lucian P.; Malik-Sheriff, Rahuman S.; Nguyen, Tung V. N.; Hermjakob, Henning; Karr, Jonathan; Shaikh, Bilal; Drescher, Logan; Moraru, Ion I.; Schaff, James C.; Agmon, Eran; Patrie, Alexander A.; Blinov, Michael L.; Hellerstein, Joseph L.; May, Elebeoba E.; Nickerson, David P.; Gennari, John H.; Sauro, Herbert M.
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Expression Atlas in 2026: enabling FAIR and open expression data through community collaboration and integration
err2025-12-01
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errOAAI
errMadrigal, Pedro; Thanki, Anil S.; Fexova, Silvie; Yu, Iris D.; Chatzigeorgiou, Arsenios; Zucchi, Ida; Marugan Calles, Jose C.; Vilmovsky, Liora; Khen, Amnon; Zhao, Lingyun; Erdos, Karoly; Kurri, Sandeep R.; Selvakumar, Sandeep; Kumbham, Upendra; Prakash, Ananth; Wang, Shengbo; Green, Andrew; Ribas, Carlos Eduardo; Sweeney, Blake; Alegbe, Tobi; Suveges, Daniel; Hemrom, Anmol; Gomez Gutierrez, David E.; Insua, Santiago; Jeffryes, Matt; Pearce, Matt; Basutkar, Prasad; Kaforou, Myrsini; Cunnington, Aubrey; Levin, Michael; Kumari, Sunita; Ware, Doreen; Goutte-Gattat, Damien; Roper, Katja; Brown, Nicholas H.; Hu, Yanhui; Perrimon, Norbert; Papatheodorou, Irene; Brazma, Alvis; Hermjakob, Henning; Harrison, Melissa; Ocana, David; Ochoa, David; McDonagh, Ellen M.; Bateman, Alex; Keane, Thomas; Vizcaino, Juan Antonio; Ernst, Christina
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Talk2Biomodels: AI agent-based open-source LLM initiative for kinetic biological models
err2025-11-19
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errOAAI
errLilija Wehling; Gurdeep Singh; Ahmad Wisnu Mulyadi; Rakesh Hadne Sreenath; Henning Hermjakob; Tung V. N. Nguyen; Thomas Rückle; Mohammed H. Mosa; Henrik Cordes; Tommaso Andreani; Thomas Klabunde; Rahuman S. Malik Sheriff; Douglas McCloskey
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The Reactome Knowledgebase 2026
err2025-11-01
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PREAI
errRagueneau, Eliot; Gong, Chuqiao; Sinquin, Pierre; Sevilla, Cristoffer; Beavers, Deidre; Grentner, Alexander; Griss, Johannes; Hogue, Gregory F. J.; Li, Nancy T.; Matthews, Lisa; May, Bruce; Milacic, Marija; Mohammadi, Helia; Petryszak, Robert; Rothfels, Karen; Shamovsky, Veronica; Stephan, Ralf; Tiwari, Krishna; Weiser, Joel; Wright, Adam; Gillespie, Marc; Wu, Guanming; Stein, Lincoln; Hermjakob, Henning; D'eustachio, Peter
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EMBL's European Bioinformatics Institute (EMBL-EBI) in 2025
err2025-11-01
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PREAI
errThakur, Matthew; Bosc, Nicolas; Brooksbank, Cath; Ernst, Christina; Freeberg, Mallory A.; Gurwitz, Kim T.; Hermjakob, Henning; Hulcoop, David G.; Martin, Maria J.; McDonagh, Ellen M.; Mithani, Aziz; O'Boyle, Noel M.; Ochoa, David; Payne, Thomas; Perez-Riverol, Yasset; Sarkans, Ugis; Sokolov, Alexey; Staudt, Nicole; Stephenson, James D.; Tzampatzopoulou, Eleni; Vizcaino, Juan Antonio; Zdrazil, Barbara; McEntyre, Johanna
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Quantitative systems toxicology: modelling to mechanistically understand and predict drug safety
err2025-10-27
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PREAI
errChristopher E. Goldring; Giusy Russomanno; Carmen Pin; Panuwat Trairatphisan; Kylie A. Beattie; Ciarán P. Fisher; Janet Piñero; Richard J. Brennan; Diana Clausznitzer; Ian M. Copple; Theo M. de Kok; Carrie A. Duckworth; Laura I. Furlong; Barbara Füzi; Attila Gabor; Louis Gall; Jan Hengstler; Henning Hermjakob; Fiona Hunter; Danyel Jennen; Mikko Koskinen; Steven J. Kunnen; Lieve Lammens; Sebastian Lobentanzer; Marcel Mohr; Elisa Passini; D. Mark Pritchard; Rahuman S. Malik-Sheriff; Blanca Rodríguez; Eric I. Rossman; Julio Saez-Rodríguez; Friedemann Schmidt; Rowena Sison-Young; Inari Soininen; Sean Turner; Bob van de Water; Johan G. C. van Hasselt; Filippo Venezia; Jeffrey A. Willy; Derek J. Leishman; James L. Stevens; Loic Laplanche
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SBMLtoOdin and Menelmacar: interactive visualisation of systems biology models for expert and non-expert audiences
err2025-09-01
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errOAAI
errLorenz, Leonie J.; Andreoletti, Antoine; Nguyen, Tung V. N.; Hermjakob, Henning; FitzJohn, Richard G.; Malik Sheriff, Rahuman S.; Lees, John A.
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Mining Alzheimer's Interactomes, Macromolecular Complexes and Pathways for Drug Discovery
err2025-08-25
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errOAAI
errKalpana Panneerselvam; Krishna Kumar Tiwari; Luana Licata; Simona Panni; Sylvie Ricard-Blum; Sucharitha Balu; Susie Huget; Juan Jose Medina Reyes; Eliot Ragueneau; Livia Perfetto; Birgit Meldal; Sandra Orchard; Henning Hermjakob
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hu.MAP3.0: atlas of human protein complexes by integration of > 25,000 proteomic experiments
err2025-05-27
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errOAAI
errFischer, Samantha N.; Claussen, Erin R.; Kourtis, Savvas; Sdelci, Sara; Orchard, Sandra; Hermjakob, Henning; Kustatscher, Georg; Drew, Kevin
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Advancing curation of viral life cycles, host interactions, and therapeutics in Reactome
err2025-05-20
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errOAAI
errMatthews, Lisa; Cook, Justin; Stephan, Ralf; Milacic, Marija; Rothfels, Karen; Shamovsky, Veronica; Jassal, Bijay; Haw, Robin; Sevilla, Cristoffer; Gong, Chuqiao; Ragueneau, Eliot; May, Bruce; Wright, Adam; Weiser, Joel; Beavers, Deidre; Tiwari, Krishna; Senff-Ribeiro, Andrea; Varusai, Thawfeek; Hermjakob, Henning; D'Eustachio, Peter; Wu, Guanming; Stein, Lincoln; Gillespie, Marc E.
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EBI Search: providing discovery tools for biological metadata in 2025
err2025-05-05
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errOAAI
errPearce, Matthew; Basutkar, Prasad; Neto, Renato Caminha Juacaba; Subramoniam, Vijay Venkatesh; Neis, Kelsey; Tutis, Iva; Hermjakob, Henning
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A tissue-specific atlas of protein-protein associations enables prioritization of candidate disease genes
err2025-05-02
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errOAAI
errTrip, Diederik S. Laman; van Oostrum, Marc; Memon, Danish; Frommelt, Fabian; Baptista, Delora; Panneerselvam, Kalpana; Bradley, Glyn; Licata, Luana; Hermjakob, Henning; Orchard, Sandra; Trynka, Gosia; Mcdonagh, Ellen M.; Fossati, Andrea; Aebersold, Ruedi; Gstaiger, Matthias; Wollscheid, Bernd; Beltrao, Pedro
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π-HuB: the proteomic navigator of the human body (Vol 636, pg 322, 2024)
errNATURE
IF48.5
err2024-12-23
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PREAI
errHe, Fuchu; Aebersold, Ruedi; Baker, Mark S.; Bian, Xiuwu; Bo, Xiaochen; Chan, Daniel W.; Chang, Cheng; Chen, Luonan; Chen, Xiangmei; Chen, Yu-Ju; Cheng, Heping; Collins, Ben C.; Corrales, Fernando; Cox, Juergen; E, Weinan; Van Eyk, Jennifer E.; Fan, Jia; Faridi, Pouya; Figeys, Daniel; Gao, George Fu; Gao, Wen; Gao, Zu-Hua; Goda, Keisuke; Goh, Wilson Wen Bin; Gu, Dongfeng; Guo, Changjiang; Guo, Tiannan; He, Yuezhong; Heck, Albert J. R.; Hermjakob, Henning; Hunter, Tony; Iyer, Narayanan Gopalakrishna; Jiang, Ying; Jimenez, Connie R.; Joshi, Lokesh; Kelleher, Neil L.; Li, Ming; Li, Yang; Lin, Qingsong; Liu, Cui Hua; Liu, Fan; Liu, Guang-Hui; Liu, Yansheng; Liu, Zhihua; Low, Teck Yew; Lu, Ben; Mann, Matthias; Meng, Anming; Moritz, Robert L.; Nice, Edouard; Ning, Guang; Omenn, Gilbert S.; Overall, Christopher M.; Palmisano, Giuseppe; Peng, Yaojin; Pineau, Charles; Poon, Terence Chuen Wai; Purcell, Anthony W.; Qiao, Jie; Reddel, Roger R.; Robinson, Phillip J.; Roncada, Paola; Sander, Chris; Sha, Jiahao; Song, Erwei; Srivastava, Sanjeeva; Sun, Aihua; Sze, Siu Kwan; Tang, Chao; Tang, Liujun; Tian, Ruijun; Vizcaino, Juan Antonio; Wang, Chanjuan; Wang, Chen; Wang, Xiaowen; Wang, Xinxing; Wang, Yan; Weiss, Tobias; Wilhelm, Mathias; Winkler, Robert; Wollscheid, Bernd; Wong, Limsoon; Xie, Linhai; Xie, Wei; Xu, Tao; Xu, Tianhao; Yan, Liying; Yang, Jing; Yang, Xiao; Yates, John; Yun, Tao; Zhai, Qiwei; Zhang, Bing; Zhang, Hui; Zhang, Lihua; Zhang, Lingqiang; Zhang, Pingwen; Zhang, Yukui; Zheng, Yu Zi; Zhong, Qing; IT-HuB Consortium, Daniel W.
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Complex portal 2025: predicted human complexes and enhanced visualisation tools for the comparison of orthologous and paralogous complexes
err2024-11-18
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errOAAI
errBalu, Sucharitha; Huget, Susie; Reyes, Juan Jose Medina; Ragueneau, Eliot; Panneerselvam, Kalpana; Fischer, Samantha N.; Claussen, Erin R.; Kourtis, Savvas; Combe, Colin W.; Meldal, Birgit H. M.; Perfetto, Livia; Rappsilber, Juri; Kustatscher, Georg; Drew, Kevin; Orchard, Sandra; Hermjakob, Henning
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Building an Ethical and Trustworthy Biomedical AI Ecosystem for the Translational and Clinical Integration of Foundation Models
err2024-09-29
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errOAAI
errSankar, Baradwaj Simha; Gilliland, Destiny; Rincon, Jack; Hermjakob, Henning; Yan, Yu; Adam, Irsyad; Lemaster, Gwyneth; Wang, Dean; Watson, Karol; Bui, Alex; Wang, Wei; Ping, Peipei
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Pathway-based, reaction-specific annotation of disease variants for elucidation of molecular phenotypes
err2024-05-07
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errOAAI
errOrlic-Milacic, Marija; Rothfels, Karen; Matthews, Lisa; Wright, Adam; Jassal, Bijay; Shamovsky, Veronica; Trinh, Quang; Gillespie, Marc E.; Sevilla, Cristoffer; Tiwari, Krishna; Ragueneau, Eliot; Gong, Chuqiao; Stephan, Ralf; May, Bruce; Haw, Robin; Weiser, Joel; Beavers, Deidre; Conley, Patrick; Hermjakob, Henning; Stein, Lincoln D.; DEustachio, Peter; Wu, Guanming
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