TY - JOUR AU - Eyrich, V. PY - 2001 DA - 2001// TI - EVA: Continuous automatic evaluation of protein structure prediction servers JO - Bioinformatics VL - 17 UR - https://doi.org/10.1093/bioinformatics/17.12.1242 DO - 10.1093/bioinformatics/17.12.1242 ID - Eyrich2001 ER - TY - JOUR AU - Rost, B. PY - 2001 DA - 2001// TI - Review: Protein Secondary Structure Prediction Continues to Rise JO - Journal of Structural Biology VL - 134 UR - https://doi.org/10.1006/jsbi.2001.4336 DO - 10.1006/jsbi.2001.4336 ID - Rost2001 ER - TY - JOUR AU - Zemla, A. AU - Ceslovas, V. e. n. c. l. o. v. a. s. AU - Fidelis, K. AU - Rost, B. PY - 1999 DA - 1999// TI - A Modified Definition of Sov, a Segment-Based Measure for Protein Secondary Structure Prediction Assessment JO - Proteins VL - 34 UR - https://doi.org/3.0.CO;2-K DO - 3.0.CO;2-K ID - Zemla1999 ER - TY - JOUR AU - Jones, D. T. PY - 1999 DA - 1999// TI - Protein Secondary Structure Prediction Based on Position-specific Scoring Matrices JO - Journal of Molecular Biology VL - 292 UR - https://doi.org/10.1006/jmbi.1999.3091 DO - 10.1006/jmbi.1999.3091 ID - Jones1999 ER - TY - CHAP AU - Nguyen, M. N. AU - Rajapakse, J. C. PY - 2002 DA - 2002// TI - Prediction of protein secondary structure using bayesian method and support vector machines BT - ICONIP ID - Nguyen2002 ER - TY - JOUR AU - King, R. D. AU - Sternberg, M. J. PY - 1996 DA - 1996// TI - Identification and application of the concepts important for accurate and reliable protein secondary structure prediction JO - Protein science VL - 5 UR - https://doi.org/10.1002/pro.5560051116 DO - 10.1002/pro.5560051116 ID - King1996 ER - TY - JOUR AU - Garnier, J. AU - Osguthorpe, D. AU - Robson, B. PY - 1978 DA - 1978// TI - Analysis of the accuracy and implications of simple methods for predicting the secondary structure of globular proteins JO - Journal of Molecular Biology VL - 120 UR - https://doi.org/10.1016/0022-2836(78)90297-8 DO - 10.1016/0022-2836(78)90297-8 ID - Garnier1978 ER - TY - JOUR AU - Levin, J. AU - Pascarella, S. AU - Argos, P. AU - Garnier, J. PY - 1993 DA - 1993// TI - Quantification of secondary structure prediction improvement using multiple alignments JO - Protein Engineering VL - 6 UR - https://doi.org/10.1093/protein/6.8.849 DO - 10.1093/protein/6.8.849 ID - Levin1993 ER - TY - JOUR AU - Rost, B. AU - Sander, C. PY - 1993 DA - 1993// TI - Prediction of protein secondary structure at better than 70% accuracy JO - Journal of Molecular Biology VL - 232 UR - https://doi.org/10.1006/jmbi.1993.1413 DO - 10.1006/jmbi.1993.1413 ID - Rost1993 ER - TY - JOUR AU - Riis, S. AU - Krogh, A. PY - 1996 DA - 1996// TI - Improving prediction of protein secondary structure using structured neural networks and multiple sequence alignments JO - Journal of Computational Biology VL - 3 UR - https://doi.org/10.1089/cmb.1996.3.163 DO - 10.1089/cmb.1996.3.163 ID - Riis1996 ER - TY - CHAP AU - Altun, Y. AU - Tsochantaridis, I. AU - Hofmann, T. PY - 2003 DA - 2003// TI - Hidden Markov Support Vector Machines BT - ICML'03: Proceedings of the 20th International Conference on Machine Learning ID - Altun2003 ER - TY - CHAP AU - Tsochantaridis, I. AU - Altun, Y. AU - Hoffman, T. PY - 2002 DA - 2002// TI - A crossover between SVMs and HMMs for protein structure prediction BT - NIPS Workshop on Machine Learning Techniques for Bioinformatics ID - Tsochantaridis2002 ER - TY - CHAP AU - Nguyen, M. N. AU - Rajapakse, J. C. PY - 2002 DA - 2002// TI - Prediction of protein secondary structure using bayesian method and support vector machines BT - 9th International Conference on Neural Information Processing ID - Nguyen2002 ER - TY - CHAP AU - Bystroff, C. AU - Thorsson, V. AU - Baker, D. PY - 2000 DA - 2000// TI - HMMSTR: a Hidden Markov Model for Local Sequence-Structure Correlations in Proteins BT - Journal of Molecular Biology ID - Bystroff2000 ER - TY - CHAP AU - Martin, J. AU - Gibrat, J. F. AU - Rodolphe, F. PY - 2005 DA - 2005// TI - Hidden Markov Model for protein secondary structure BT - International Symposium on Applied Stochastic Models and Data Analysis ID - Martin2005 ER - TY - CHAP AU - Won, K. AU - Hamelryck, T. AU - Prügel-Bennett, A. AU - Krogh, A. PY - 2005 DA - 2005// TI - Evolving Hidden Markov Models for Protein Secondary Structure Prediction BT - Proceedings of IEEE Congress on Evolutionary Computation ID - Won2005 ER - TY - JOUR AU - Won, K. J. AU - Prügel-Bennett, A. AU - Krogh, A. PY - 2004 DA - 2004// TI - Training HMM Structure with Genetic Algorithm for Biological Sequence Analysis JO - Bioinformatics VL - 20 UR - https://doi.org/10.1093/bioinformatics/bth454 DO - 10.1093/bioinformatics/bth454 ID - Won2004 ER - TY - JOUR AU - Schmidler, S. C. AU - Liu, J. S. AU - Brutlag, D. L. PY - 2000 DA - 2000// TI - Bayesian Segmentation of Protein Secondary Structure JO - Journal of Computational Biology VL - 7 UR - https://doi.org/10.1089/10665270050081496 DO - 10.1089/10665270050081496 ID - Schmidler2000 ER - TY - JOUR AU - Schmidler, S. C. AU - Liu, J. S. AU - Brutlag, D. L. PY - 2001 DA - 2001// TI - Bayesian Protein Structure Prediction JO - Case Studies in Bayesian Statistics VL - 5 ID - Schmidler2001 ER - TY - CHAP AU - Chu, W. AU - Ghahramani, Z. PY - 2004 DA - 2004// TI - Protein Secondary Structure Prediction Using Sigmoid Belief Networks to Parameterize Segmental Semi-Markov Models BT - European Symposium on Artificial Neural Networks Bruges (Belgium) ID - Chu2004 ER - TY - JOUR AU - Krogh, A. AU - Larsson, B. AU - von Heijne, G. AU - Sonnhammer, E. PY - 2001 DA - 2001// TI - Predicting transmembrane protein topology with a hidden markov model: application to complete genomes JO - Journal of Molecular Biology VL - 305 UR - https://doi.org/10.1006/jmbi.2000.4315 DO - 10.1006/jmbi.2000.4315 ID - Krogh2001 ER - TY - JOUR AU - Qian, N. AU - Sejnowski, T. PY - 1988 DA - 1988// TI - Predicting the secondary structure of globular proteins using neural network models JO - Journal of Molecular Biology VL - 202 UR - https://doi.org/10.1016/0022-2836(88)90564-5 DO - 10.1016/0022-2836(88)90564-5 ID - Qian1988 ER - TY - JOUR AU - Baldi, P. AU - Brunak, S. AU - Frasconi, P. AU - Soda, G. AU - Pollastri, G. PY - 1999 DA - 1999// TI - Exploiting the past and the future in protein secondary structure prediction JO - Bioinformatics VL - 15 UR - https://doi.org/10.1093/bioinformatics/15.11.937 DO - 10.1093/bioinformatics/15.11.937 ID - Baldi1999 ER - TY - JOUR AU - Pollastri, G. AU - McLysaght, A. PY - 2005 DA - 2005// TI - Porter: a new, accurate server for protein secondary structure prediction JO - Bioinformatics VL - 21 UR - https://doi.org/10.1093/bioinformatics/bti203 DO - 10.1093/bioinformatics/bti203 ID - Pollastri2005 ER - TY - JOUR AU - Petersen, T. N. AU - Lundegaard, C. AU - Nielsen, M. AU - Bohr, H. AU - Bohr, J. AU - Brunak, S. AU - Gippert, G. P. AU - Lund, O. PY - 2000 DA - 2000// TI - Prediction of Protein Secondary Structure at 80% Accuracy JO - PROTEINS: Structure, Function, and Genetics VL - 14 UR - https://doi.org/3.0.CO;2-F DO - 3.0.CO;2-F ID - Petersen2000 ER - TY - JOUR AU - Lin, K. AU - Simossis, V. A. AU - Taylor, W. R. AU - Heringa, J. PY - 2005 DA - 2005// TI - A simple and fast secondary structure prediction method using hidden neural networks JO - Bioinformatics VL - 21 UR - https://doi.org/10.1093/bioinformatics/bth487 DO - 10.1093/bioinformatics/bth487 ID - Lin2005 ER - TY - JOUR AU - Ouali, M. AU - King, R. D. PY - 2000 DA - 2000// TI - Cascaded multiple classifiers for secondary structure prediction JO - Protein Science VL - 9 UR - https://doi.org/10.1110/ps.9.6.1162 DO - 10.1110/ps.9.6.1162 ID - Ouali2000 ER - TY - JOUR AU - Eyrich, V. AU - Marti-Renom, M. AU - Przybylski, D. AU - Madhusudhan, M. AU - Fiser, A. AU - Pazos, F. AU - Valencia, A. AU - Sali, A. AU - Rost, B. PY - 2001 DA - 2001// TI - EVA: Continuous automatic evaluation of protein structure prediction servers JO - Bioinformatics VL - 17 UR - https://doi.org/10.1093/bioinformatics/17.12.1242 DO - 10.1093/bioinformatics/17.12.1242 ID - Eyrich2001 ER - TY - JOUR AU - Nguyen, M. N. AU - Rajapakse, J. C. PY - 2003 DA - 2003// TI - Multi-Class Support Vector Machines for Protein Secondary Structure Prediction JO - Genome Informatics VL - 14 ID - Nguyen2003 ER - TY - JOUR AU - Ward, J. AU - McGuffin, L. AU - Buxton, B. AU - Jones, D. PY - 2003 DA - 2003// TI - Secondary structure prediction with support vector machines JO - Bioinformatics VL - 19 UR - https://doi.org/10.1093/bioinformatics/btg223 DO - 10.1093/bioinformatics/btg223 ID - Ward2003 ER - TY - JOUR AU - Ceroni, A. AU - Frasconi, P. AU - Passerini, A. AU - Vullo, A. PY - 2003 DA - 2003// TI - A Combination of Support Vector Machines and Bidirectional Recurrent Neural Networks for Protein Secondary Structure Predict JO - Advances in Artificial Intelligence, 8th Congress of the Italian Association for Artificial Intelligence VL - 2829 ID - Ceroni2003 ER - TY - CHAP AU - Casborn, J. PY - 2002 DA - 2002// TI - Protein Secondary Structure Class Prediction with Support Vector Machines BT - MSc Dissertation ID - Casborn2002 ER - TY - JOUR AU - Hua, S. AU - Sun, Z. PY - 2001 DA - 2001// TI - A Novel Method of Protein Secondary Structure Prediction with High Segment Overlap Measure: Support Vector Machine Approach JO - Journal of Molecular Biology VL - 308 UR - https://doi.org/10.1006/jmbi.2001.4580 DO - 10.1006/jmbi.2001.4580 ID - Hua2001 ER - TY - JOUR AU - Hu, H. J. AU - Pan, Y. AU - Harrison, R. AU - Tai, P. C. PY - 2004 DA - 2004// TI - Improved Protein Secondary Structure Prediction Using Support Vector Machine With a New Encoding Scheme and an Advanced Tertiary Classifier JO - IEEE Transactions on Nanobioscience VL - 3 UR - https://doi.org/10.1109/TNB.2004.837906 DO - 10.1109/TNB.2004.837906 ID - Hu2004 ER - TY - STD TI - EVA Largest sequence of unique subset of PDB[http://salilab.org/~eva/res/weeks.html#unique] UR - http://salilab.org/~eva/res/weeks.html#unique ID - ref35 ER - TY - CHAP AU - Kabsch, W. AU - Sander, C. PY - 1983 DA - 1983// TI - Dictionary of protein secondary structure BT - Biopolymers ID - Kabsch1983 ER - TY - CHAP AU - Berman, H. AU - Westbrook, J. AU - Feng, Z. AU - Gilliland, G. AU - Bhat, T. AU - Weissig, H. AU - Shindyalov, I. AU - Bourne, P. PY - 2000 DA - 2000// TI - The Protein Data Bank BT - Nucleic Acids Research ID - Berman2000 ER - TY - CHAP AU - Tsochantaridis, I. AU - Hofmann, T. AU - Joachims, T. AU - Altun, Y. PY - 2004 DA - 2004// TI - Support Vector Machine Learning for Interdependent and Structured Output Spaces BT - ICML ID - Tsochantaridis2004 ER - TY - CHAP AU - Aurora, R. AU - Rose, G. PY - 1998 DA - 1998// TI - Helix capping BT - Protein Science ID - Aurora1998 ER -