Protein Secondary Structure Prediction with Partially Recurrent Neural Networks

References

• Robson , B. and Gamier , J. 1986 . Introduction to Proteins and Protein Engineering , 230 Amsterdam : Elsevier .
   Google Scholar
• Kabsch , W. and Sander , C. 1983 . Dictionary of protein secondary structure: Pattern recognition of hydrogen-bonded and geometrical features . Biopolymers , 22 : 2577 – 2637 .
   PubMed Web of Science ®Google Scholar
• Gamier , J. 1990 . Protein structure prediction . Biochimie , 72 : 513 – 524 .
   Google Scholar
• Chou , P. and Fasman , G. 1974 . Prediction of protein conformation . Biochemistry , 13 : 222 – 245 .
   PubMed Web of Science ®Google Scholar
• Gibrat , J. , Gamier , J. and Robson , B. 1987 . Further development of protein secondary structure prediction using information theory. New parameters and consideration of residue pairs . J. Mol. Biol. , 198 : 425 – 443 .
   PubMed Web of Science ®Google Scholar
• Qian , N. and Sejnowski , T. 1988 . Predicting the secondary structure of globular proteins using neural network models . J. Mol. Biol. , 202 : 865 – 884 .
   PubMed Web of Science ®Google Scholar
• Holley , L. and Karplus , M. 1989 . Protein secondary structure prediction with a neural network . Proc. Natl. Acad. Sci. USA , 86 : 152 – 156 .
   PubMed Web of Science ®Google Scholar
• Bohr , H. , Bohr , J. , Brunak , S. , Cotterill , R. , Lautrup , B. , Norskov , L. , Olsen , O. and Petersen , S. 1988 . Protein secondary structure and homology by neural networks . FEBS Letters , 241 : 223 – 228 .
   PubMed Web of Science ®Google Scholar
• Rumelhart , D. , Hinton , G. and Williams , R. 1986 . “ Learning internal representations by error propagation ” . In Parallel Distributed Processing: Explorations in the Microstructure of Cognition, Vol. 1, Foundations , Edited by: Rumelhart , D. E. and McClelland , J. L. 318 Cambridge, Massachusetts : MIT Press .
   Google Scholar
• Jordan , M. 1989 . “ Serial order: A parallel, distributed processing approach ” . In Advances in Connectionist Theory: Speech , Edited by: Elman , J. and Rumelhart , D. Hillsdale : Erlbaum .
   Google Scholar
• Elman , J. 1990 . Finding structure in time . Cognitive Science , 14 : 179 – 211 .
   Web of Science ®Google Scholar
• Cleeremans , A. , Servan-Schreiber , D. and McClelland , J. 1989 . Finite state automata and simple recurrent networks . Neural Computation , 1 : 372 – 381 .
   Web of Science ®Google Scholar
• Bengio , Y. , Cardin , R. and De Mori , R. 1990 . “ Speaker independent speech recognition with neural networks and speech knowledge ” . In Advances in Neural Information Processing Systems II , Edited by: Touretzky , D. 218 – 225 . San Mateo : Morgan Kaufmann .
   Google Scholar
• Albus , J. 1991 . Outline for a theory of intelligence . IEEE Transactions on Systems, Man, and Cybernetics , 21 : 473 – 509 .
   Web of Science ®Google Scholar
• Hertz , J. , Krogh , A. and Palmer , R. 1991 . Introduction to the Theory of Neural Computation , 180 Redwood City : Addison-Wesley .
   Google Scholar
• Kneller , D. , Cohen , F. and Landridge , R. 1990 . Improvements in protein secondary structure prediction by an enhanced neural network . J. Mol. Biol. , 214 : 171 – 182 .
   PubMed Web of Science ®Google Scholar
• Stolorz , P. , Lapedes , A. and Xia , Y. 1992 . Predicting protein secondary structure using neural net and statistical methods . J. Mol. Biol. , 225 : 363 – 377 .
   Google Scholar