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CAMEO and CASP: Assessment of Protein Structure Modelling and Prediction Techniques
Project funded by own resources
Project title CAMEO and CASP: Assessment of Protein Structure Modelling and Prediction Techniques
Principal Investigator(s) Schwede, Torsten
Project Members Barbato, Alessandro
Roth, Steven
Haas, Jürgen
Behringer, Dario
Gumienny, Rafal Wojciech
Organisation / Research unit Departement Biozentrum / Bioinformatics (Schwede)
Project Website http://cameo3d.org/
Project start 01.01.2009
Probable end 31.12.2015
Status Completed
Abstract

The goal of CASP, the Community Wide Experiment on the Critical Assessment of Techniques for Protein Structure Prediction, is to obtain an in-depth and objective assessment of our current abilities and inabilities in the area of protein structure prediction. To this end, participants have predicted as much as possible about a set of soon to be known structures. These true predictions, not ‘post-dictions’ made on already known structure, were assessed to explore if the models produced were similar to the corresponding experimental structure, and which methods are most effective. CAMEO uses weekly pre-released sequences from PDB for the continuous automated blind evaluation of structure prediction methods. This allows methods developers to continuously benchmark and improve methods, and users of models to select the most appropriate techniques.

 

Financed by University funds
Other funds

Published results ()

  ID Autor(en) Titel ISSN / ISBN Erschienen in Art der Publikation
156362  Clarke, Neil D; Ezkurdia, Iakes; Kopp, Jürgen; Read, Randy J; Schwede, Torsten; Tress, Michael  Domain Definition and Target Classification for CASP7  0887-3585  Proteins  Publication: JournalArticle (Originalarbeit in einer wissenschaftlichen Zeitschrift) 
156364  Battey, James N D; Kopp, Jürgen; Bordoli, Lorenza; Read, Randy J; Clarke, Neil D; Schwede, Torsten  Automated server predictions in CASP7  0887-3585  Proteins  Publication: JournalArticle (Originalarbeit in einer wissenschaftlichen Zeitschrift) 
156365  Bordoli, Lorenza; Kiefer, Florian; Schwede, Torsten  Assessment of disorder predictions in CASP7  0887-3585  Proteins  Publication: JournalArticle (Originalarbeit in einer wissenschaftlichen Zeitschrift) 
156366  Kopp, Jürgen; Bordoli, Lorenza; Battey, James N D; Kiefer, Florian; Schwede, Torsten  Assessment of CASP7 predictions for template-based modeling targets  0887-3585  Proteins  Publication: JournalArticle (Originalarbeit in einer wissenschaftlichen Zeitschrift) 
856155  Kryshtafovych, Andriy; Moult, John; Bartual, Sergio G.; Bazan, J. Fernando; Berman, Helen; Casteel, Darren E.; Christodoulou, Evangelos; Everett, John K.; Hausmann, Jens; Heidebrecht, Tatjana; Hills, Tanya; Hui, Raymond; Hunt, John F.; Seetharaman, Jayaraman; Joachimiak, Andrzej; Kennedy, Michael A.; Kim, Choel; Lingel, Andreas; Michalska, Karolina; Montelione, Gaetano T.; Otero, José M.; Perrakis, Anastassis; Pizarro, Juan C.; van Raaij, Mark J.; Ramelot, Theresa A.; Rousseau, Francois; Tong, Liang; Wernimont, Amy K.; Young, Jasmine; Schwede, Torsten  Target highlights in CASP9: Experimental target structures for the critical assessment of techniques for protein structure prediction  0887-3585 ; 1097-0134  Proteins: Structure, Function, and Bioinformatics  Publication: JournalArticle (Originalarbeit in einer wissenschaftlichen Zeitschrift) 
856156  Mariani, Valerio; Kiefer, Florian; Schmidt, Tobias; Haas, Juergen; Schwede, Torsten  Assessment of template based protein structure predictions in CASP9  0887-3585  Proteins  Publication: JournalArticle (Originalarbeit in einer wissenschaftlichen Zeitschrift) 
856157  Kinch, Lisa N.; Shi, Shuoyong; Cheng, Hua; Cong, Qian; Pei, Jimin; Mariani, Valerio; Schwede, Torsten; Grishin, Nick V.  CASP9 target classification  0887-3585  Proteins  Publication: JournalArticle (Originalarbeit in einer wissenschaftlichen Zeitschrift) 
856158  Schmidt, Tobias; Haas, Jürgen; Gallo Cassarino, Tiziano; Schwede, Torsten  Assessment of ligand-binding residue predictions in CASP9  0887-3585  Proteins  Publication: JournalArticle (Originalarbeit in einer wissenschaftlichen Zeitschrift) 
2158295  Mariani, Valerio; Biasini, Marco; Barbato, Alessandro; Schwede, Torsten  lDDT: a local superposition-free score for comparing protein structures and models using distance difference tests  1367-4803  Bioinformatics  Publication: JournalArticle (Originalarbeit in einer wissenschaftlichen Zeitschrift) 
2158297  Kryshtafovych, Andriy; Barbato, Alessandro; Fidelis, Krzysztof; Monastyrskyy, Bohdan; Schwede, Torsten; Tramontano, Anna  Assessment of the assessment : evaluation of the model quality estimates in CASP10  0887-3585  Proteins  Publication: JournalArticle (Originalarbeit in einer wissenschaftlichen Zeitschrift) 
2288380  Kryshtafovych, Andriy; Moult, John; Bales, Patrick; Bazan, J. Fernando; Biasini, Marco; Burgin, Alex; Chen, Chen; Cochran, Frank V.; Craig, Timothy K.; Das, Rhiju; Fass, Deborah; Garcia-Doval, Carmela; Herzberg, Osnat; Lorimer, Donald; Luecke, Hartmut; Ma, Xiaolei; Nelson, Daniel C.; van Raaij, Mark J.; Rohwer, Forest; Segall, Anca; Seguritan, Victor; Zeth, Kornelius; Schwede, Torsten  Challenging the state-of-the-art in protein structure prediction : highlights of experimental target structures for the 10(th) Critical Assessment of Techniques for Protein Structure Prediction Experiment CASP10  0887-3585  Proteins  Publication: JournalArticle (Originalarbeit in einer wissenschaftlichen Zeitschrift) 
2293714  Moult, John; Fidelis, Krzysztof; Kryshtafovych, Andriy; Schwede, Torsten; Tramontano, Anna  Critical assessment of methods of protein structure prediction (CASP) - round X  0887-3585  Proteins  Publication: JournalArticle (Originalarbeit in einer wissenschaftlichen Zeitschrift) 
2293716  Gallo Cassarino, Tiziano; Bordoli, Lorenza; Schwede, Torsten  Assessment of ligand binding site predictions in CASP10.  0887-3585  Proteins  Publication: JournalArticle (Originalarbeit in einer wissenschaftlichen Zeitschrift) 
48220  Clarke, Neil D.; Ezkurdia, Iakes; Kopp, Jurgen; Read, Randy J.; Schwede, Torsten; Tress, Michael  Domain definition and target classification for CASP7  0887-3585  PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS  Publication: JournalArticle (Originalarbeit in einer wissenschaftlichen Zeitschrift) 
48221  Kopp, Jurgen; Bordoli, Lorenza; Battey, James N. D.; Kiefer, Florian; Schwede, Torsten  Assessment of CASP7 predictions for template-based modeling targets  0887-3585  PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS  Publication: JournalArticle (Originalarbeit in einer wissenschaftlichen Zeitschrift) 
48222  Battey, James N. D.; Kopp, Jurgen; Bordoli, Lorenza; Read, Randy J.; Clarke, Neil D.; Schwede, Torsten  Automated server predictions in CASP7  0887-3585  PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS  Publication: JournalArticle (Originalarbeit in einer wissenschaftlichen Zeitschrift) 
48223  Bordoli, Lorenza; Kiefer, Florian; Schwede, Torsten  Assessment of disorder predictions in CASP7  0887-3585  PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS  Publication: JournalArticle (Originalarbeit in einer wissenschaftlichen Zeitschrift) 
156351  Benkert, Pascal; Tosatto, Silvio C E; Schwede, Torsten  Global and local model quality estimation at CASP8 using the scoring functions QMEAN and QMEANclust  0887-3585  Proteins  Publication: JournalArticle (Originalarbeit in einer wissenschaftlichen Zeitschrift) 
3631638  Kryshtafovych, Andriy; Moult, John; Baslé, Arnaud; Burgin, Alex; Craig, Timothy K.; Edwards, Robert A.; Fass, Deborah; Hartmann, Marcus D.; Korycinski, Mateusz; Lewis, Richard J.; Lorimer, Donald; Lupas, Andrei N.; Newman, Janet; Peat, Thomas S.; Piepenbrink, Kurt H.; Prahlad, Janani; van Raaij, Mark J.; Rohwer, Forest; Segall, Anca M.; Seguritan, Victor; Sundberg, Eric J.; Singh, Abhimanyu K.; Wilson, Mark A.; Schwede, Torsten  Some of the most interesting CASP11 targets through the eyes of their authors  0887-3585 ; 1097-0134  Proteins: Structure, Function, and Bioinformatics  Publication: JournalArticle (Originalarbeit in einer wissenschaftlichen Zeitschrift) 
3631667  Kryshtafovych, Andriy; Barbato, Alessandro; Monastyrskyy, Bohdan; Fidelis, Krzysztof; Schwede, Torsten; Tramontano, Anna  Methods of model accuracy estimation can help selecting the best models from decoy sets: assessment of model accuracy estimations in CASP11  0887-3585 ; 1097-0134  Proteins: Structure, Function, and Bioinformatics  Publication: JournalArticle (Originalarbeit in einer wissenschaftlichen Zeitschrift) 

Cooperations ()

  ID Kreditinhaber Kooperationspartner Institution Laufzeit - von Laufzeit - bis
1533620  Schwede, Torsten  Tramontano, Anna  University of Rome  01.01.2009  31.12.2016 
1533624  Schwede, Torsten  Moult, John  IBBR, University of Maryland  01.01.2009  31.12.2021 
105119  Schwede, Torsten  Berman, Helen  RCSB PDB, Nature PSI Structural Genomics Knowledgebase  01.04.2007  31.12.2017 
105129  Schwede, Torsten  Westbrook, John D.  RCSB PDB, Nature PSI Structural Genomics Knowledgebase   01.04.2007  31.07.2016 
2355645  Schwede, Torsten  Fidelis, Krzysztof   UC Davis Genome Center  01.01.2009  31.12.2017 
2355647  Schwede, Torsten  Kryshtafovych, Andriy   UC Davis Genome Center  01.01.2009  31.12.2021 
   

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