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S.K. Burley

University of California System

106H-index
1.3KPaper Count
5.2WCitation Count
Published Papers 148
Publication Date
Multi-scale structural similarity embedding search across entire proteomes
err2026-03-01
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PREAI
errSegura, Joan; Sanchez-Garcia, Ruben; Bittrich, Sebastian; Rose, Yana; Burley, Stephen K.; Duarte, Jose M.
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ModelCIF update: Supporting Emerging Classes of Computational Macromolecular Models
err2026-01-22
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PREAI
errGerardo Tauriello; Yoriko Lill; Jacopo Sgrignani; Vincent Zoete; Benedikt Singer; Brinda Vallat; Benjamin M. Webb; Thomas Garello; Stefan Bienert; Michael Feig; Elena Papaleo; Stephen K. Burley; Andrej Sali; Markus A. Lill; Andrea Cavalli; Matteo Dal Peraro; Torsten Schwede
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PDX1 phosphorylation at S61 by mTORC1 links nutrient signaling to β cell function and metabolic disease
err2026-01-12
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errOAAI
errJialin Fan; Xin Zhang; Jinling Zhang; Tinghan Zhao; Stephen K. Burley; X.F. Steven Zheng
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RCSB Protein Data Bank: Delivering integrative structures alongside experimental structures and computed structure models
err2025-11-01
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PREAI
errVallat, Brinda; Rose, Yana; Piehl, Dennis W.; Duarte, Jose M.; Bittrich, Sebastian; Bi, Chunxiao; Segura, Joan; Zalevsky, Arthur; Sekharan, Monica R.; Webb, Benjamin M.; Bhikadiya, Charmi; Voigt, Maria; Henry, Jeremy; Chao, Henry; Pingale, Aditya; Raymond, David; Sagendorf, Jared; Peisach, Ezra; Feng, Zukang; Guranovic, Vladimir; Smith, James; Rose, Alexander S.; Young, Jasmine Y.; Berman, Helen M.; Sali, Andrej; Burley, Stephen K.
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Matrix Metalloproteinases as Candidate Antigenic Determinants for Anti-Tumor Autoantibodies in Human Ovarian Cancer: A Post Hoc Analysis
err2025-09-23
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errOAAI
errChristopher Markosian; Alexander M. Ille; Stephen K. Burley; Wadih Arap; Renata Pasqualini
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Q-score as a reliability measure for protein, nucleic acid and small-molecule atomic coordinate models derived from 3DEM maps
err2025-08-01
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PREAI
errPintilie, Grigore; Shao, Chenghua; Wang, Zhe; Hudson, Brian P.; Flatt, Justin W.; Schmid, Michael F.; Morris, Kyle L.; Burley, Stephen K.; Chiu, Wah
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Conformational ligand-directed targeting of calcium-dependent receptors in acute trauma
errMed
IF11.8
err2025-07-02
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errOAAI
errRenata Pasqualini; Christopher Markosian; Daniela I. Staquicini; Andrey S. Dobroff; Esteban Dodero-Rojas; Paul C. Whitford; E. Magda Barbu; Julianna K. Bronk; Marina Cardó-Vila; Dawn R. Christianson; Emmanuel Dias-Neto; Wouter H.P. Driessen; Liliana Guzman-Rojas; Serena Marchiò; Diana N. Nunes; Francislon S. de Oliveira; Michael G. Ozawa; Bettina Proneth; Roberto Rangel; Tracey L. Smith; Glauco R. Souza; Fernanda I. Staquicini; Fenny H.F. Tang; Wallace B. Baze; João C. Setubal; John W. Burns; Michael A. Dubick; Juri G. Gelovani; Andriy I. Batchinsky; Jon E. Mogford; Charles E. Wade; John B. Holcomb; Stephen K. Burley; José N. Onuchic; Wadih Arap
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MolViewSpec: a Mol* extension for describing and sharing molecular visualizations
err2025-05-06
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errOAAI
errMidlik, Adam; Bittrich, Sebastian; Fleming, Jennifer R.; Nair, Sreenath; Velankar, Sameer; Burley, Stephen K.; Young, Jasmine Y.; Vallat, Brinda; Sehnal, David
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Where and how to house big data on small fragments
err2025-05-05
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errOAAI
errErlanson, Daniel A.; Burley, Stephen K.; Fearon, Daren; Fraser, James S.; Kreitler, Dale; Nonato, Maria Cristina; Sakai, Naoki; Wollenhaupt, Jan; Weiss, Manfred S.
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Visualizing and analyzing 3D biomolecular structures using Mol* at RCSB.org: Influenza A H5N1 virus proteome case study
err2025-03-18
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errOAAI
errBittrich, Sebastian; Rose, Alexander S.; Sehnal, David; Duarte, Jose M.; Rose, Yana; Segura, Joan; Piehl, Dennis W.; Vallat, Brinda; Shao, Chenghua; Bhikadiya, Charmi; Liang, Jesse; Ma, Mark; Goodsell, David S.; Burley, Stephen K.; Dutta, Shuchismita
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BindingDB in 2024: a FAIR knowledgebase of protein-small molecule binding data
err2024-11-22
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errOAAI
errLiu, Tiqing; Hwang, Linda; Burley, Stephen K.; Nitsche, Carmen, I; Southan, Christopher; Walters, W. Patrick; Gilson, Michael K.
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Outcomes of the EMDataResource cryo-EM Ligand Modeling Challenge
err2024-06-25
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errOAAI
errLawson, Catherine L.; Kryshtafovych, Andriy; Pintilie, Grigore D.; Burley, Stephen K.; Cerny, Jiri; Chen, Vincent B.; Emsley, Paul; Gobbi, Alberto; Joachimiak, Andrzej; Noreng, Sigrid; Prisant, Michael G.; Read, Randy J.; Richardson, Jane S.; Rohou, Alexis L.; Schneider, Bohdan; Sellers, Benjamin D.; Shao, Chenghua; Sourial, Elizabeth; Williams, Chris I.; Williams, Christopher J.; Yang, Ying; Abbaraju, Venkat; Afonine, Pavel V.; Baker, Matthew L.; Bond, Paul S.; Blundell, Tom L.; Burnley, Tom; Campbell, Arthur; Cao, Renzhi; Cheng, Jianlin; Chojnowski, Grzegorz; Cowtan, K. D.; DiMaio, Frank; Esmaeeli, Reza; Giri, Nabin; Grubmueller, Helmut; Hoh, Soon Wen; Hou, Jie; Hryc, Corey F.; Hunte, Carola; Igaev, Maxim; Joseph, Agnel P.; Kao, Wei-Chun; Kihara, Daisuke; Kumar, Dilip; Lang, Lijun; Lin, Sean; Subramaniya, Sai R. Maddhuri Venkata; Mittal, Sumit; Mondal, Arup; Moriarty, Nigel W.; Muenks, Andrew; Murshudov, Garib N.; Nicholls, Robert A.; Olek, Mateusz; Palmer, Colin M.; Perez, Alberto; Pohjolainen, Emmi; Pothula, Karunakar R.; Rowley, Christopher N.; Sarkar, Daipayan; Schaefer, Luisa U.; Schlicksup, Christopher J.; Schroeder, Gunnar F.; Shekhar, Mrinal; Si, Dong; Singharoy, Abhishek; Sobolev, Oleg V.; Terashi, Genki; Vaiana, Andrea C.; Vedithi, Sundeep C.; Verburgt, Jacob; Wang, Xiao; Warshamanage, Rangana; Winn, Martyn D.; Weyand, Simone; Yamashita, Keitaro; Zhao, Minglei; Schmid, Michael F.; Berman, Helen M.; Chiu, Wah
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Impact of structural biology and the protein data bank on us fda new drug approvals of low molecular weight antineoplastic agents 2019-2023
err2024-06-17
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errOAAI
errBurley, Stephen K.; Wu-Wu, Amy; Dutta, Shuchismita; Ganesan, Shridar; Zheng, Steven X. F.
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PDB NextGen Archive: centralizing access to integrated annotations and enriched structural information by the Worldwide Protein Data Bank
err2024-05-27
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errOAAI
errChoudhary, Preeti; Feng, Zukang; Berrisford, John; Chao, Henry; Ikegawa, Yasuyo; Peisach, Ezra; Piehl, Dennis W.; Smith, James; Tanweer, Ahsan; Varadi, Mihaly; Westbrook, John D.; Young, Jasmine Y.; Patwardhan, Ardan; Morris, Kyle L.; Hoch, Jeffrey C.; Kurisu, Genji; Velankar, Sameer; Burley, Stephen K.
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Nuclear mTOR Signaling Orchestrates Transcriptional Programs Underlying Cellular Growth and Metabolism
errCELLS
IF5.2
err2024-05-03
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errOAAI
errZhao, Tinghan; Fan, Jialin; Abu-Zaid, Ahmed; Burley, Stephen K.; Zheng, X. F. Steven
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EMDB-the Electron Microscopy Data Bank
err2023-11-22
err19
errOAAI
errTurner, Jack; Abbott, Sanja; Fonseca, Neli; Carrijo, Lucas; Duraisamy, Amudha Kumari; Salih, Osman; Wang, Zhe; Kleywegt, Gerard J.; Morris, Kyle L.; Patwardhan, Ardan; Burley, Stephen K.; Crichlow, Gregg; Feng, Zukang; Flatt, Justin W.; Ghosh, Sutapa; Hudson, Brian P.; Lawson, Catherine L.; Liang, Yuhe; Peisach, Ezra; Persikova, Irina; Sekharan, Monica; Shao, Chenghua; Young, Jasmine; Velankar, Sameer; Armstrong, David; Bage, Marcus; Bueno, Wesley Morellato; Evans, Genevieve; Gaborova, Romana; Ganguly, Sudakshina; Gupta, Deepti; Harrus, Deborah; Tanweer, Ahsan; Bansal, Manju; Rangannan, Vetriselvi; Kurisu, Genji; Cho, Hasumi; Ikegawa, Yasuyo; Kengaku, Yumiko; Kim, Ju Yaen; Niwa, Satomi; Sato, Junko; Takuwa, Ayako; Yu, Jian; Hoch, Jeffrey C.; Baskaran, Kumaran; Xu, Wenqing; Zhang, Weizhe; Ma, Xiaodan
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Modeling of ACE2 and antibodies bound to SARS-CoV-2 provides insights into and immune evasion
err2023-07-10
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errOAAI
errLubin, Joseph H.; Markosian, Christopher; Balamurugan, D.; Ma, Minh T.; Chen, Chih-Hsiung; Liu, Dongfang; Pasqualini, Renata; Arap, Wadih; Burley, Stephen K.; Khare, Sagar D.
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