SAM_T08 Results for TR429

Please cite the following papers:

• George Shackelford and Kevin Karplus. Contact Prediction using Mutual Information and Neural Nets. Proteins: Structure, Function, and Bioinformatics, 69(S8):159-164, 2007. (CASP7 sepcial issue).
  doi:10.1002/prot.21791 Preprint

• Kevin Karplus, Sol Katzman, George Shackleford, Martina Koeva, Jenny Draper, Bret Barnes, Marcia Soriano, and Richard Hughey. SAM-T04: what's new in protein-structure prediction for CASP6. Proteins: Structure, Function, and Bioinformatics, 2005. 61(S7):135-142. doi:10.1002/prot.20730
• Rachel Karchin, Melissa Cline, and Kevin Karplus. Evaluation of local structure alphabets based on residue burial. Proteins: Structure, Function, and Genetics, 55(3):508--518, 5 March 2004. doi:10.1002/prot.20008

• Rachel Karchin, Melissa Cline, Yael Mandel-Gutfreund, and Kevin Karplus. Hidden Markov models that use predicted local structure for fold recognition: alphabets of backbone geometry. Proteins: Structure, Function, and Genetics, 51(4):504--514, June 2003. doi:10.1002/prot.10369

• Karplus, K. and Karchin, R. and Draper, J. and Casper, J. and Mandel-Gutfreund, Y. and Diekhans, M. and Hughey, R. ``Combining local-structure, fold-recognition, and new-fold methods for protein structure prediction'' Proteins: Structure Function and Genetics53(S6):491-496,15 Oct 2003 doi:10.1002/prot.10540
• Rachel Karchin, Melissa Cline, Yael Mandel-Gutfreund, and Kevin Karplus. ``Hidden Markov models that use predicted local structure for fold recognition: alphabets of backbone geometry.'' Proteins: Structure, Function, and Genetics, 51(4):504--514, June 2003. doi:10.1002/prot.10369
• Karplus, K. and Karchin, R. and Barrett, C. and Tu, S. and Cline, M. and Diekhans, M. and Grate, L. and Casper, J. and Hughey, R. ``What is the value added by human intervention in protein structure prediction?'' Proteins: Structure Function and Genetics 45(S5):86-91,2001 doi:10.1002/prot.10021