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2020 – today
- 2023
[j19]Joan Segura
, Yana Rose, Chunxiao Bi, Jose M. Duarte, Stephen K. Burley, Sebastian Bittrich:
RCSB Protein Data Bank: visualizing groups of experimentally determined PDB structures alongside computed structure models of proteins. Frontiers Bioinform. 3 (2023)- [j18]Stephen K. Burley, Charmi Bhikadiya, Chunxiao Bi, Sebastian Bittrich, Henry Chao, Li Chen, Paul A. Craig, Gregg V. Crichlow, Kenneth Dalenberg, Jose M. Duarte, Shuchismita Dutta, Maryam Fayazi, Zukang Feng, Justin W. Flatt, Sai Ganesan, Sutapa Ghosh, David S. Goodsell, Rachel Kramer Green, Vladimir Guranovic, Jeremy Henry, Brian P. Hudson, Igor Khokhriakov, Catherine L. Lawson, Yuhe Liang, Robert Lowe, Ezra Peisach, Irina Persikova, Dennis W. Piehl, Yana Rose, Andrej Sali, Joan Segura, Monica Sekharan, Chenghua Shao, Brinda Vallat, Maria Voigt, Ben M. Webb, John D. Westbrook, Shamara Whetstone, Jasmine Young, Arthur O. Zalevsky, Christine Zardecki:
RCSB Protein Data Bank (RCSB.org): delivery of experimentally-determined PDB structures alongside one million computed structure models of proteins from artificial intelligence/machine learning. Nucleic Acids Res. 51(D1): 488-508 (2023) - 2022
- [j17]Sebastian Bittrich, Yana Rose, Joan Segura, Robert Lowe, John D. Westbrook, Jose M. Duarte, Stephen K. Burley:
RCSB Protein Data Bank: improved annotation, search and visualization of membrane protein structures archived in the PDB. Bioinform. 38(5): 1452-1454 (2022) - [j16]Joan Segura, Yana Rose, Sebastian Bittrich, Stephen K. Burley, Jose M. Duarte:
RCSB Protein Data Bank 1D3D module: displaying positional features on macromolecular assemblies. Bioinform. 38(12): 3304-3305 (2022) - 2021
- [j15]Joan Segura, Yana Rose, John D. Westbrook, Stephen K. Burley, Jose M. Duarte:
RCSB Protein Data Bank 1D tools and services. Bioinform. 36(22-23): 5526-5527 (2021) - [j14]Stephen K. Burley, Charmi Bhikadiya, Chunxiao Bi, Sebastian Bittrich, Li Chen, Gregg V. Crichlow, Cole H. Christie, Kenneth Dalenberg, Luigi Di Costanzo, Jose M. Duarte, Shuchismita Dutta, Zukang Feng, Sai Ganesan, David S. Goodsell, Sutapa Ghosh, Rachel Kramer Green, Vladimir Guranovic, Dmytro Guzenko, Brian P. Hudson, Catherine L. Lawson, Yuhe Liang, Robert Lowe, Harry Namkoong, Ezra Peisach, Irina Persikova, Christopher Randle, Alexander S. Rose, Yana Rose, Andrej Sali, Joan Segura, Monica Sekharan, Chenghua Shao, Yi-Ping Tao, Maria Voigt, John D. Westbrook, Jasmine Young, Christine Zardecki, Marina Zhuravleva:
RCSB Protein Data Bank: powerful new tools for exploring 3D structures of biological macromolecules for basic and applied research and education in fundamental biology, biomedicine, biotechnology, bioengineering and energy sciences. Nucleic Acids Res. 49(Database-Issue): D437-D451 (2021) - 2020
- [j13]Dmytro Guzenko, Stephen K. Burley, Jose M. Duarte:
Real time structural search of the Protein Data Bank. PLoS Comput. Biol. 16(7) (2020)
2010 – 2019
- 2019
- [j12]Stephen K. Burley, Helen M. Berman, Charmi Bhikadiya, Chunxiao Bi, Li Chen, Luigi Di Costanzo, Cole H. Christie, Kenneth Dalenberg, Jose M. Duarte, Shuchismita Dutta, Zukang Feng, Sutapa Ghosh, David S. Goodsell, Rachel Kramer Green, Vladimir Guranovic, Dmytro Guzenko, Brian P. Hudson, Tara Kalro, Yuhe Liang, Robert Lowe, Harry Namkoong, Ezra Peisach, Irina Periskova, Andreas Prlic, Christopher Randle, Alexander S. Rose, Peter W. Rose, Raul Sala, Monica Sekharan, Chenghua Shao, Lihua Tan, Yi-Ping Tao, Yana Valasatava, Maria Voigt, John D. Westbrook, Jesse Woo, Huanwang Yang, Jasmine Young, Marina Zhuravleva, Christine Zardecki:
RCSB Protein Data Bank: biological macromolecular structures enabling research and education in fundamental biology, biomedicine, biotechnology and energy. Nucleic Acids Res. 47(Database-Issue): D464-D474 (2019) - [j11]Aleix Lafita, Spencer Bliven, Andreas Prlic, Dmytro Guzenko, Peter W. Rose, Anthony R. Bradley, Paolo Pavan, Douglas Myers-Turnbull, Yana Valasatava, Michael L. Heuer, Matt Larson, Stephen K. Burley, Jose M. Duarte:
BioJava 5: A community driven open-source bioinformatics library. PLoS Comput. Biol. 15(2) (2019) - 2018
- [j10]Alexander S. Rose, Anthony R. Bradley, Yana Valasatava, Jose M. Duarte, Andreas Prlic, Peter W. Rose:
NGL viewer: web-based molecular graphics for large complexes. Bioinform. 34(21): 3755-3758 (2018) - [j9]Spencer Bliven, Aleix Lafita, Althea Parker, Guido Capitani, Jose M. Duarte:
Automated evaluation of quaternary structures from protein crystals. PLoS Comput. Biol. 14(4) (2018) - 2017
- [j8]Peter W. Rose, Andreas Prlic, Ali Altunkaya, Chunxiao Bi, Anthony R. Bradley, Cole H. Christie, Luigi Di Costanzo, Jose M. Duarte, Shuchismita Dutta, Zukang Feng, Rachel Kramer Green, David S. Goodsell, Brian P. Hudson, Tara Kalro, Robert Lowe, Ezra Peisach, Christopher Randle, Alexander S. Rose, Chenghua Shao, Yi-Ping Tao, Yana Valasatava, Maria Voigt, John D. Westbrook, Jesse Woo, Huanwang Yang, Jasmine Young, Christine Zardecki, Helen M. Berman, Stephen K. Burley:
The RCSB protein data bank: integrative view of protein, gene and 3D structural information. Nucleic Acids Res. 45(Database-Issue): D271-D281 (2017) - [j7]Anthony R. Bradley, Alexander S. Rose, Antonín Pavelka, Yana Valasatava, Jose M. Duarte, Andreas Prlic, Peter W. Rose:
MMTF - An efficient file format for the transmission, visualization, and analysis of macromolecular structures. PLoS Comput. Biol. 13(6) (2017) - 2016
- [j6]Guido Capitani, Jose M. Duarte, Kumaran Baskaran, Spencer Bliven, Joseph C. Somody:
Understanding the fabric of protein crystals: computational classification of biological interfaces and crystal contacts. Bioinform. 32(4): 481-489 (2016) - [c1]Alexander S. Rose, Anthony R. Bradley, Yana Valasatava, Jose M. Duarte, Andreas Prlic, Peter W. Rose:
Web-based molecular graphics for large complexes. Web3D 2016: 185-186 - 2012
- [j5]Jose M. Duarte, Adam Srebniak, Martin A. Schärer, Guido Capitani:
Protein interface classification by evolutionary analysis. BMC Bioinform. 13: 334 (2012) - 2011
- [j4]Corinna Vehlow, Henning Stehr, Matthias Winkelmann, Jose M. Duarte, Lars Petzold, Juliane Dinse, Michael Lappe:
CMView: Interactive contact map visualization and analysis. Bioinform. 27(11): 1573-1574 (2011) - 2010
- [j3]Henning Stehr, Jose M. Duarte, Michael Lappe, Jong Bhak, Dan M. Bolser:
PDBWiki: added value through community annotation of the Protein Data Bank. Database J. Biol. Databases Curation 2010 (2010) - [j2]Jose M. Duarte, Rajagopal Sathyapriya, Henning Stehr, Ioannis Filippis, Michael Lappe:
Optimal contact definition for reconstruction of Contact Maps. BMC Bioinform. 11: 283 (2010)
2000 – 2009
- 2009
- [j1]Rajagopal Sathyapriya, Jose M. Duarte, Henning Stehr, Ioannis Filippis, Michael Lappe:
Defining an Essence of Structure Determining Residue Contacts in Proteins. PLoS Comput. Biol. 5(12) (2009)
Coauthor Index
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