-
1
-
-
76549252207
-
Two hydrogen-bonded helical configurations of the polypeptide chain
-
L. Pauling, R. B. Corey, and H. R. Branson, "Two hydrogen-bonded helical configurations of the polypeptide chain," Proceedings of the National Academy of Sciences of the United States of America, vol. 37, no. 4, pp. 205-211, 1951.
-
(1951)
Proceedings of the National Academy of Sciences of the United States of America
, vol.37
, Issue.4
, pp. 205-211
-
-
Pauling, L.1
Corey, R.B.2
Branson, H.R.3
-
2
-
-
0020997912
-
Dictionary of protein secondary structure: Pattern recognition of hydrogen-bonded and geometrical features
-
W. Kabsch and C. Sander, "Dictionary of protein secondary structure: Pattern recognition of hydrogen-bonded and geometrical features," Biopolymers, vol. 22, no. 12, pp. 2577-2637, 1983.
-
(1983)
Biopolymers
, vol.22
, Issue.12
, pp. 2577-2637
-
-
Kabsch, W.1
Sander, C.2
-
3
-
-
0028327236
-
Protein folding dynamics: The diffusion-collision model and experimental data
-
M. Karplus and D. L. Weaver, "Protein folding dynamics: The diffusion-collision model and experimental data," Protein Science, vol. 3, no. 4, pp. 650-668, 1994.
-
(1994)
Protein Science
, vol.3
, Issue.4
, pp. 650-668
-
-
Karplus, M.1
Weaver, D.L.2
-
4
-
-
0035005366
-
Preorganized secondary structure as an important determinant of fast protein folding
-
Jun
-
J. K. Myers and T. G. Oas, "Preorganized secondary structure as an important determinant of fast protein folding," Nat Struct Mol Biol, vol. 8, no. 6, pp. 552-558, Jun 2001.
-
(2001)
Nat Struct Mol Biol
, vol.8
, Issue.6
, pp. 552-558
-
-
Myers, J.K.1
Oas, T.G.2
-
5
-
-
0023803244
-
Predicting the secondary structure of globular proteins using neural network models
-
N. Qian and T. J. Sejnowski, "Predicting the secondary structure of globular proteins using neural network models," Journal of Molecular Biology, vol. 202, no. 4, pp. 865-884, 1988.
-
(1988)
Journal of Molecular Biology
, vol.202
, Issue.4
, pp. 865-884
-
-
Qian, N.1
Sejnowski, T.J.2
-
6
-
-
0000268209
-
Protein secondary structure prediction with a neural network
-
L. H. Holley and M. Karplus, "Protein secondary structure prediction with a neural network," Proceedings of the National Academy of Sciences of the United States of America, vol. 86, no. 1, pp. 152-156, 1989.
-
(1989)
Proceedings of the National Academy of Sciences of the United States of America
, vol.86
, Issue.1
, pp. 152-156
-
-
Holley, L.H.1
Karplus, M.2
-
7
-
-
0025334980
-
Improvements in protein secondary structure prediction by an enhanced neural network
-
D. Kneller, F. Cohen, and R. Langridge, "Improvements in protein secondary structure prediction by an enhanced neural network," Journal of Molecular Biology, vol. 214, no. 1, pp. 171-182, 1990.
-
(1990)
Journal of Molecular Biology
, vol.214
, Issue.1
, pp. 171-182
-
-
Kneller, D.1
Cohen, F.2
Langridge, R.3
-
8
-
-
0027291015
-
Prediction of protein secondary structure at better than 70% accuracy
-
B. Rost and C. Sander, "Prediction of protein secondary structure at better than 70% accuracy," Journal of Molecular Biology, vol. 232, no. 2, pp. 584-599, 1993.
-
(1993)
Journal of Molecular Biology
, vol.232
, Issue.2
, pp. 584-599
-
-
Rost, B.1
Sander, C.2
-
9
-
-
0028300741
-
Combining evolutionary information and neural networks to predict protein secondary structure
-
B. Rost and C. Sander, "Combining evolutionary information and neural networks to predict protein secondary structure," Proteins: Structure, Function, and Genetics, vol. 19, no. 1, pp. 55-72, 1994.
-
(1994)
Proteins: Structure, Function, and Genetics
, vol.19
, Issue.1
, pp. 55-72
-
-
Rost, B.1
Sander, C.2
-
10
-
-
0029889988
-
Phd: Predicting one-dimensional protein structure by profile-based neural networks
-
Computer Methods for Macromolecular Sequence Analysis, R. F. Doolittle, Ed. Academic Press
-
B. Rost, "Phd: Predicting one-dimensional protein structure by profile-based neural networks," in Computer Methods for Macromolecular Sequence Analysis, ser. Methods in Enzymology, R. F. Doolittle, Ed. Academic Press, 1996, vol. 266, pp. 525-539.
-
(1996)
Ser. Methods in Enzymology
, vol.266
, pp. 525-539
-
-
Rost, B.1
-
11
-
-
0033106244
-
Evaluation and improvement of multiple sequence methods for protein secondary structure prediction
-
J. A. Cuff and G. J. Barton, "Evaluation and improvement of multiple sequence methods for protein secondary structure prediction," Proteins: Structure, Function, and Genetics, vol. 34, no. 4, pp. 508-519, 1999.
-
(1999)
Proteins: Structure, Function, and Genetics
, vol.34
, Issue.4
, pp. 508-519
-
-
Cuff, J.A.1
Barton, G.J.2
-
12
-
-
0033578684
-
Protein secondary structure prediction based on position-specific scoring matrices
-
D. T. Jones, "Protein secondary structure prediction based on position-specific scoring matrices," Journal of Molecular Biology, vol. 292, no. 2, pp. 195-202, 1999.
-
(1999)
Journal of Molecular Biology
, vol.292
, Issue.2
, pp. 195-202
-
-
Jones, D.T.1
-
14
-
-
0027174134
-
Prediction of protein secondary structure by the hidden Markov model
-
K. Asai, S. Hayamizu, and K. Handa, "Prediction of protein secondary structure by the hidden Markov model," Bioinformatics, vol. 9, no. 2, pp. 141-146, 1993.
-
(1993)
Bioinformatics
, vol.9
, Issue.2
, pp. 141-146
-
-
Asai, K.1
Hayamizu, S.2
Handa, K.3
-
15
-
-
33745259286
-
Protein secondary structure prediction for a single-sequence using hidden semi-markov models
-
Z. Aydin, Y. Altunbasak, and M. Borodovsky, "Protein secondary structure prediction for a single-sequence using hidden semi-markov models," BMC Bioinformatics, vol. 7, no. 1, p. 178, 2006.
-
(2006)
BMC Bioinformatics
, vol.7
, Issue.1
, pp. 178
-
-
Aydin, Z.1
Altunbasak, Y.2
Borodovsky, M.3
-
16
-
-
0035957531
-
A novel method of protein secondary structure prediction with high segment overlap measure: Support vector machine approach
-
S. Hua and Z. Sun, "A novel method of protein secondary structure prediction with high segment overlap measure: support vector machine approach," Journal of Molecular Biology, vol. 308, no. 2, pp. 397-407, 2001.
-
(2001)
Journal of Molecular Biology
, vol.308
, Issue.2
, pp. 397-407
-
-
Hua, S.1
Sun, Z.2
-
17
-
-
0141593924
-
Protein secondary structure prediction based on an improved support vector machines approach
-
H. Kim and H. Park, "Protein secondary structure prediction based on an improved support vector machines approach," Protein Engineering, vol. 16, no. 8, pp. 553-560, 2003.
-
(2003)
Protein Engineering
, vol.16
, Issue.8
, pp. 553-560
-
-
Kim, H.1
Park, H.2
-
18
-
-
0141738785
-
Secondary structure prediction with support vector machines
-
J. J. Ward, L. J. McGuffin, B. F. Buxton, and D. T. Jones, "Secondary structure prediction with support vector machines," Bioinformatics, vol. 19, no. 13, pp. 1650-1655, 2003.
-
(2003)
Bioinformatics
, vol.19
, Issue.13
, pp. 1650-1655
-
-
Ward, J.J.1
McGuffin, L.J.2
Buxton, B.F.3
Jones, D.T.4
-
19
-
-
1542346418
-
A novel method for protein secondary structure prediction using dual-layer svm and profiles
-
J. Guo, H. Chen, Z. Sun, and Y. Lin, "A novel method for protein secondary structure prediction using dual-layer svm and profiles," Proteins: Structure, Function, and Bioinformatics, vol. 54, no. 4, pp. 738-743, 2004.
-
(2004)
Proteins: Structure, Function, and Bioinformatics
, vol.54
, Issue.4
, pp. 738-743
-
-
Guo, J.1
Chen, H.2
Sun, Z.3
Lin, Y.4
-
20
-
-
50049099447
-
Position-specific residue preference features around the ends of helices and strands and a novel strategy for the prediction of secondary structures
-
M. Duan, M. Huang, C. Ma, L. Li, and Y. Zhou, "Position-specific residue preference features around the ends of helices and strands and a novel strategy for the prediction of secondary structures," Protein Science, vol. 17, no. 9, pp. 1505-1512, 2008.
-
(2008)
Protein Science
, vol.17
, Issue.9
, pp. 1505-1512
-
-
Duan, M.1
Huang, M.2
Ma, C.3
Li, L.4
Zhou, Y.5
-
21
-
-
0036568279
-
Improving the prediction of protein secondary structure in three and eight classes using recurrent neural networks and profiles
-
G. Pollastri, D. Przybylski, B. Rost, and P. Baldi, "Improving the prediction of protein secondary structure in three and eight classes using recurrent neural networks and profiles," Proteins: Structure, Function, and Genetics, vol. 47, no. 2, pp. 228-235, 2002.
-
(2002)
Proteins: Structure, Function, and Genetics
, vol.47
, Issue.2
, pp. 228-235
-
-
Pollastri, G.1
Przybylski, D.2
Rost, B.3
Baldi, P.4
-
22
-
-
84863373241
-
Conditional neural fields
-
Y. Bengio, D. Schuurmans, J. Lafferty, C. K. I. Williams, and A. Culotta, Eds.
-
J. Peng, L. Bo, and J. Xu, "Conditional neural fields," in Advances in Neural Information Processing Systems 22, Y. Bengio, D. Schuurmans, J. Lafferty, C. K. I. Williams, and A. Culotta, Eds., 2009, pp. 1419-1427.
-
(2009)
Advances in Neural Information Processing Systems
, vol.22
, pp. 1419-1427
-
-
Peng, J.1
Bo, L.2
Xu, J.3
-
23
-
-
67650333594
-
A probabilistic graphical model for ab initio folding
-
Berlin, Heidelberg: Springer-Verlag
-
F. Zhao, J. Peng, J. Debartolo, K. F. Freed, T. R. Sosnick, and J. Xu, "A probabilistic graphical model for ab initio folding," in RECOMB 2'09: Proceedings of the 13th Annual International Conference on Research in Computational Molecular Biology. Berlin, Heidelberg: Springer-Verlag, 2009, pp. 59-73.
-
(2009)
RECOMB 2'09: Proceedings of the 13th Annual International Conference on Research in Computational Molecular Biology
, pp. 59-73
-
-
Zhao, F.1
Peng, J.2
Debartolo, J.3
Freed, K.F.4
Sosnick, T.R.5
Xu, J.6
-
24
-
-
0142192295
-
Conditional random fields: Probabilistic models for segmenting and labeling sequence data
-
San Francisco, CA, USA: Morgan Kaufmann Publishers Inc.
-
J. D. Lafferty, A. McCallum, and F. C. N. Pereira, "Conditional random fields: Probabilistic models for segmenting and labeling sequence data," in ICML '01: Proceedings of the Eighteenth International Conference on Machine Learning. San Francisco, CA, USA: Morgan Kaufmann Publishers Inc., 2001, pp. 282-289.
-
(2001)
ICML '01: Proceedings of the Eighteenth International Conference on Machine Learning
, pp. 282-289
-
-
Lafferty, J.D.1
McCallum, A.2
Pereira, F.C.N.3
-
25
-
-
50849085804
-
Discriminative learning for protein conformation sampling
-
F. Zhao, S. Li, B. W. Sterner, and J. Xu, "Discriminative learning for protein conformation sampling," Proteins: Structure, Function, and Bioinformatics, vol. 73, no. 1, pp. 228-240, 2008.
-
(2008)
Proteins: Structure, Function, and Bioinformatics
, vol.73
, Issue.1
, pp. 228-240
-
-
Zhao, F.1
Li, S.2
Sterner, B.W.3
Xu, J.4
-
26
-
-
33646887390
-
On the limited memory bfgs method for large scale optimization
-
D. C. Liu and J. Nocedal, "On the limited memory bfgs method for large scale optimization," Mathematical Programming, vol. 45, pp. 503-528, 1989.
-
(1989)
Mathematical Programming
, vol.45
, pp. 503-528
-
-
Liu, D.C.1
Nocedal, J.2
-
27
-
-
0035789525
-
Generation and evaluation of dimension-reduced amino acid parameter representations by artificial neural networks
-
Sep
-
J. Meiler, M. Müller, A. Zeidler, and F. Schmäschke, "Generation and evaluation of dimension-reduced amino acid parameter representations by artificial neural networks," Journal of Molecular Modeling, vol. 7, no. 9, pp. 360-369, Sep 2001.
-
(2001)
Journal of Molecular Modeling
, vol.7
, Issue.9
, pp. 360-369
-
-
Meiler, J.1
Müller, M.2
Zeidler, A.3
Schmäschke, F.4
-
28
-
-
33746239564
-
Statistical potential-based amino acid similarity matrices for aligning distantly related protein sequences
-
Y. H. Tan, H. Huang, and D. Kihara, "Statistical potential-based amino acid similarity matrices for aligning distantly related protein sequences," Proteins: Structure, Function, and Bioinformatics, vol. 64, no. 3, pp. 587-600, 2006.
-
(2006)
Proteins: Structure, Function, and Bioinformatics
, vol.64
, Issue.3
, pp. 587-600
-
-
Tan, Y.H.1
Huang, H.2
Kihara, D.3
-
29
-
-
77954196482
-
Low-homology protein threading
-
J. Peng and J. Xu, "Low-homology protein threading," Bioinformatics, vol. 26, no. 12, pp. i294-300, 2010.
-
(2010)
Bioinformatics
, vol.26
, Issue.12
-
-
Peng, J.1
Xu, J.2
-
30
-
-
0043180474
-
PISCES: A protein sequence culling server
-
G. Wang and J. Dunbrack, Roland L., "PISCES: a protein sequence culling server," Bioinformatics, vol. 19, no. 12, pp. 1589-1591, 2003.
-
(2003)
Bioinformatics
, vol.19
, Issue.12
, pp. 1589-1591
-
-
Wang, G.1
Dunbrack, J.2
Roland, L.3
-
31
-
-
0028064006
-
Redefining the goals of protein secondary structure prediction
-
B. Rost, C. Sander, and R. Schneider, "Redefining the goals of protein secondary structure prediction," Journal of Molecular Biology, vol. 235, no. 1, pp. 13 - 26, 1994.
-
(1994)
Journal of Molecular Biology
, vol.235
, Issue.1
, pp. 13-26
-
-
Rost, B.1
Sander, C.2
Schneider, R.3
|