Automated selection of stabilizing mutations in designed and natural proteins
Borgo, Benjamin, Havranek, James J
Published in Proceedings of the National Academy of Sciences - PNAS (31.01.2012)
Published in Proceedings of the National Academy of Sciences - PNAS (31.01.2012)
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Journal Article
Serverification of molecular modeling applications: the Rosetta Online Server that Includes Everyone (ROSIE)
Lyskov, Sergey, Chou, Fang-Chieh, Conchúir, Shane Ó, Der, Bryan S, Drew, Kevin, Kuroda, Daisuke, Xu, Jianqing, Weitzner, Brian D, Renfrew, P Douglas, Sripakdeevong, Parin, Borgo, Benjamin, Havranek, James J, Kuhlman, Brian, Kortemme, Tanja, Bonneau, Richard, Gray, Jeffrey J, Das, Rhiju
Published in PloS one (22.05.2013)
Published in PloS one (22.05.2013)
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Scientific benchmarks for guiding macromolecular energy function improvement
Leaver-Fay, Andrew, O'Meara, Matthew J, Tyka, Mike, Jacak, Ron, Song, Yifan, Kellogg, Elizabeth H, Thompson, James, Davis, Ian W, Pache, Roland A, Lyskov, Sergey, Gray, Jeffrey J, Kortemme, Tanja, Richardson, Jane S, Havranek, James J, Snoeyink, Jack, Baker, David, Kuhlman, Brian
Published in Methods in enzymology (2013)
Published in Methods in enzymology (2013)
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Journal Article
Characterization of Leber Congenital Amaurosis-associated NMNAT1 Mutants
Sasaki, Yo, Margolin, Zachary, Borgo, Benjamin, Havranek, James J., Milbrandt, Jeffrey
Published in The Journal of biological chemistry (10.07.2015)
Published in The Journal of biological chemistry (10.07.2015)
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Journal Article
Inhibition of Bacterial Virulence: Drug-Like Molecules Targeting the Salmonella enterica PhoP Response Regulator
Tang, Yat T., Gao, Rong, Havranek, James J., Groisman, Eduardo A., Stock, Ann M., Marshall, Garland R.
Published in Chemical biology & drug design (01.06.2012)
Published in Chemical biology & drug design (01.06.2012)
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Journal Article
ROSETTA3: an object-oriented software suite for the simulation and design of macromolecules
Leaver-Fay, Andrew, Tyka, Michael, Lewis, Steven M, Lange, Oliver F, Thompson, James, Jacak, Ron, Kaufman, Kristian, Renfrew, P Douglas, Smith, Colin A, Sheffler, Will, Davis, Ian W, Cooper, Seth, Treuille, Adrien, Mandell, Daniel J, Richter, Florian, Ban, Yih-En Andrew, Fleishman, Sarel J, Corn, Jacob E, Kim, David E, Lyskov, Sergey, Berrondo, Monica, Mentzer, Stuart, Popović, Zoran, Havranek, James J, Karanicolas, John, Das, Rhiju, Meiler, Jens, Kortemme, Tanja, Gray, Jeffrey J, Kuhlman, Brian, Baker, David, Bradley, Philip
Published in Methods in enzymology (2011)
Published in Methods in enzymology (2011)
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Journal Article
Comparative Analysis of Mutant Tyrosine Kinase Chemical Rescue
Muratore, Kathryn E, Seeliger, Markus A, Wang, Zhihong, Fomina, Dina, Neiswinger, Johnathan, Havranek, James J, Baker, David, Kuriyan, John, Cole, Philip A
Published in Biochemistry (Easton) (21.04.2009)
Published in Biochemistry (Easton) (21.04.2009)
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Journal Article
Quantitative profiling of selective Sox/POU pairing on hundreds of sequences in parallel by Coop-seq
Chang, Yiming K, Srivastava, Yogesh, Hu, Caizhen, Joyce, Adam, Yang, Xiaoxiao, Zuo, Zheng, Havranek, James J, Stormo, Gary D, Jauch, Ralf
Published in Nucleic acids research (25.01.2017)
Published in Nucleic acids research (25.01.2017)
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Journal Article
Computational redesign of endonuclease DNA binding and cleavage specificity
Ashworth, Justin, Baker, David, Havranek, James J, Duarte, Carlos M, Sussman, Django, Monnat, Raymond J, Stoddard, Barry L
Published in Nature (01.06.2006)
Published in Nature (01.06.2006)
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Journal Article
Exploitation of binding energy for catalysis and design
Baker, David, Takeuchi, Ryo, Scharenberg, Andrew M, Jarjour, Jordan, Havranek, James J, Thyme, Summer B, Stoddard, Barry L, Ashworth, Justin
Published in Nature (London) (29.10.2009)
Published in Nature (London) (29.10.2009)
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Journal Article
Protein–DNA binding specificity predictions with structural models
Morozov, Alexandre V., Havranek, James J., Baker, David, Siggia, Eric D.
Published in Nucleic acids research (01.01.2005)
Published in Nucleic acids research (01.01.2005)
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Journal Article
Structure-based modeling of protein: DNA specificity
Joyce, Adam P, Zhang, Chi, Bradley, Philip, Havranek, James J
Published in Briefings in functional genomics (01.01.2015)
Published in Briefings in functional genomics (01.01.2015)
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