-
1
-
-
0031576355
-
Do aligned sequences share the same fold?
-
Abagyan, R.A. and Batalov, S. (1997) Do aligned sequences share the same fold? J. Mol. Biol., 273, 355-368.
-
(1997)
J. Mol. Biol.
, vol.273
, pp. 355-368
-
-
Abagyan, R.A.1
Batalov, S.2
-
2
-
-
0029097099
-
Global fold determination from a small number of distance restraints
-
Aszodi, A., Gradwell, M.J. and Taylor, W.R. (1995) Global fold determination from a small number of distance restraints. J. Mol. Biol., 251, 308-326.
-
(1995)
J. Mol. Biol.
, vol.251
, pp. 308-326
-
-
Aszodi, A.1
Gradwell, M.J.2
Taylor, W.R.3
-
3
-
-
0035812694
-
Protein structure prediction and structural genomics
-
Baker, D. and Sali, A. (2001) Protein structure prediction and structural genomics. Science, 294, 93-96.
-
(2001)
Science
, vol.294
, pp. 93-96
-
-
Baker, D.1
Sali, A.2
-
4
-
-
0029183826
-
Gradient descent learning algorithms overview: A general dynamical systems perspective
-
Baldi, P. (1995) Gradient descent learning algorithms overview: A general dynamical systems perspective. IEEE Trans. Neural Networks, 6, 182-195.
-
(1995)
IEEE Trans. Neural Networks
, vol.6
, pp. 182-195
-
-
Baldi, P.1
-
5
-
-
0003396310
-
-
MIT Press, Cambridge, MA
-
Baldi, P. and Brunak, S. (2001) Bioinformatics: the Machine Learning Approach, Second edition, MIT Press, Cambridge, MA.
-
(2001)
Bioinformatics: The Machine Learning Approach, Second Edition
-
-
Baldi, P.1
Brunak, S.2
-
6
-
-
0030266582
-
Hybrid modeling, HMM/NN architectures, and protein applications
-
Baldi, P. and Chauvin, Y. (1996) Hybrid modeling, HMM/NN architectures, and protein applications. Neural Comput., 8, 1541-1565.
-
(1996)
Neural Comput.
, vol.8
, pp. 1541-1565
-
-
Baldi, P.1
Chauvin, Y.2
-
9
-
-
0032993447
-
Polymer principles and protein folding
-
Dill, K. (1999) Polymer principles and protein folding. Protein Sci., 8, 1166-1180.
-
(1999)
Protein Sci.
, vol.8
, pp. 1166-1180
-
-
Dill, K.1
-
10
-
-
0033047710
-
Neural network based predictor of residue contacts in proteins
-
Fariselli, P. and Casadio, R. (1999) Neural network based predictor of residue contacts in proteins. Protein Eng., 12, 15-21.
-
(1999)
Protein Eng.
, vol.12
, pp. 15-21
-
-
Fariselli, P.1
Casadio, R.2
-
11
-
-
0034565448
-
Prediction of the number of residue contacts in proteins
-
AAAI Press, Menlo Park, CA
-
Fariselli, P. and Casadio, R. (2000) Prediction of the number of residue contacts in proteins. Proceedings of the 2000 Conference on Intelligent Systems for Molecular Biology (ISMB00), LaJolla, CA. AAAI Press, Menlo Park, CA, pp. 146-151.
-
(2000)
Proceedings of the 2000 Conference on Intelligent Systems for Molecular Biology (ISMB00), LaJolla, CA
, pp. 146-151
-
-
Fariselli, P.1
Casadio, R.2
-
12
-
-
0035663988
-
Prediction of contact maps with neural networks and correlated mutations
-
Fariselli, P., Olmea, O., Valencia, A. and Casadio, R. (2001) Prediction of contact maps with neural networks and correlated mutations. Protein Eng., 14, 835-843.
-
(2001)
Protein Eng.
, vol.14
, pp. 835-843
-
-
Fariselli, P.1
Olmea, O.2
Valencia, A.3
Casadio, R.4
-
13
-
-
0032165969
-
A general framework for adaptive processing of data structures
-
Frasconi, P., Gori, M. and Sperduti, A. (1998) A general framework for adaptive processing of data structures. IEEE Trans. Neural Networks, 9, 768-786.
-
(1998)
IEEE Trans. Neural Networks
, vol.9
, pp. 768-786
-
-
Frasconi, P.1
Gori, M.2
Sperduti, A.3
-
14
-
-
0028295169
-
Correlated mutations and residue contacts in proteins
-
Gobel, U., Sander, C., Schneider, R. and Valencia, A. (1994) Correlated mutations and residue contacts in proteins. Proteins: Struct. Funct. Genet., 18, 309-317.
-
(1994)
Proteins: Struct. Funct. Genet.
, vol.18
, pp. 309-317
-
-
Gobel, U.1
Sander, C.2
Schneider, R.3
Valencia, A.4
-
15
-
-
0026726481
-
Topology fingerprint approach to the inverse protein folding problem
-
Godzik, A., Skolnick, J. and Kolinski, A. (1992) Topology fingerprint approach to the inverse protein folding problem. J. Mol. Biol., 227, 227-238.
-
(1992)
J. Mol. Biol.
, vol.227
, pp. 227-238
-
-
Godzik, A.1
Skolnick, J.2
Kolinski, A.3
-
16
-
-
0033287637
-
Using sequence motifs for enhanced neural network prediction of protein distance constraints
-
AAAI Press, Menlo Park, CA
-
Gorodkin, J., Lund, O., Andersen, C.A. and Brunak, S. (1999) Using sequence motifs for enhanced neural network prediction of protein distance constraints. Proceedings of the Seventh International Conference on Intelligent Systems for Molecular Biology (ISMB99), La Jolla, CA. AAAI Press, Menlo Park, CA, pp. 95-105.
-
(1999)
Proceedings of the Seventh International Conference on Intelligent Systems for Molecular Biology (ISMB99), la Jolla, CA
, pp. 95-105
-
-
Gorodkin, J.1
Lund, O.2
Andersen, C.A.3
Brunak, S.4
-
18
-
-
0002370418
-
A tutorial on learning with Bayesian networks
-
Jordan, M. (ed.). Kluwer, Dordrecht
-
Heckerman, D. (1998) A tutorial on learning with Bayesian networks. In Jordan, M. (ed.), Learning in Graphical Models. Kluwer, Dordrecht.
-
(1998)
Learning in Graphical Models
-
-
Heckerman, D.1
-
19
-
-
0027092678
-
Selection of representative data sets
-
Hobohm, U., Scharf, M., Schneider, R. and Sander, C. (1992) Selection of representative data sets. Protein Sci., 1, 409-417.
-
(1992)
Protein Sci.
, vol.1
, pp. 409-417
-
-
Hobohm, U.1
Scharf, M.2
Schneider, R.3
Sander, C.4
-
20
-
-
0020997912
-
Dictionary of protein secondary structure: Pattern recognition of hydrogen-bonded and geometrical features
-
Kabsch, W. and Sander, C. (1983) Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features. Biopolymers, 22, 2577-2637.
-
(1983)
Biopolymers
, vol.22
, pp. 2577-2637
-
-
Kabsch, W.1
Sander, C.2
-
22
-
-
0035703008
-
Assessment of novel fold targets in CASP4: Predictions of three-dimensional structures, secondary structures, and interresidue contacts
-
Lesk, A.M., Conte, L.L. and Hubbard, T.J.P. (2001) Assessment of novel fold targets in CASP4: predictions of three-dimensional structures, secondary structures, and interresidue contacts. Proteins, 45 S5, 98-118.
-
(2001)
Proteins
, vol.45 S5
, pp. 98-118
-
-
Lesk, A.M.1
Conte, L.L.2
Hubbard, T.J.P.3
-
23
-
-
0031406438
-
Protein distance constraints predicted by neural networks and probability density functions
-
Lund, O., Frimand, K., Gorodkin, J., Bohr, H., Bohr, J., Hansen, J. and Brunak, S. (1997) Protein distance constraints predicted by neural networks and probability density functions. Protein Eng., 10, 1241-1248.
-
(1997)
Protein Eng.
, vol.10
, pp. 1241-1248
-
-
Lund, O.1
Frimand, K.2
Gorodkin, J.3
Bohr, H.4
Bohr, J.5
Hansen, J.6
Brunak, S.7
-
24
-
-
0023732144
-
Determination of three-dimensional structures of proteins from interproton distance data by dynamical simulated annealing from a random array of atoms
-
Nilges, M., Clore, G.M. and Gronenborn, A.M. (1988a) Determination of three-dimensional structures of proteins from interproton distance data by dynamical simulated annealing from a random array of atoms. FEBS Lett., 239, 129-136.
-
(1988)
FEBS Lett.
, vol.239
, pp. 129-136
-
-
Nilges, M.1
Clore, G.M.2
Gronenborn, A.M.3
-
25
-
-
0024285896
-
Determination of three-dimensional structures of proteins from interproton distance data by hybrid distance geometry-dynamical simulated annealing calculations
-
Nilges, M., Clore, G.M. and Gronenborn, A.M. (1988b) Determination of three-dimensional structures of proteins from interproton distance data by hybrid distance geometry-dynamical simulated annealing calculations. FEBS Lett., 229, 317-324.
-
(1988)
FEBS Lett.
, vol.229
, pp. 317-324
-
-
Nilges, M.1
Clore, G.M.2
Gronenborn, A.M.3
-
26
-
-
0033550256
-
Effective use of sequence correlation and conservation in fold recognition
-
Olmea, O., Rost, B. and Valencia, A. (1999) Effective use of sequence correlation and conservation in fold recognition. J. Mol. Biol., 295, 1221-1239.
-
(1999)
J. Mol. Biol.
, vol.295
, pp. 1221-1239
-
-
Olmea, O.1
Rost, B.2
Valencia, A.3
-
27
-
-
0030627941
-
Improving contact predictions by the combination of correlated mutations and other sources of sequence information
-
Olmea, O. and Valencia, A. (1997) Improving contact predictions by the combination of correlated mutations and other sources of sequence information. Fold. Des., 2, S25-S32.
-
(1997)
Fold. Des.
, vol.2
-
-
Olmea, O.1
Valencia, A.2
-
28
-
-
0032613288
-
Ab initio folding of proteins using restraints derived from evolutionary information
-
Ortiz, A.R., Kolinski, A., Rotkiewicz, P., Ilkowski, B. and Skolnick, J. (1999) Ab initio folding of proteins using restraints derived from evolutionary information. Proteins, Suppl. 3, 177-185.
-
(1999)
Proteins
, Issue.SUPPL. 3
, pp. 177-185
-
-
Ortiz, A.R.1
Kolinski, A.2
Rotkiewicz, P.3
Ilkowski, B.4
Skolnick, J.5
-
29
-
-
0030821675
-
Correlated mutations contain information about protein-protein interactions
-
Pazos, F., Helmer-Citterich, M., Ausiello, G. and Valencia, A. (1997) Correlated mutations contain information about protein-protein interactions. J. Mol. Biol., 271, 511-523.
-
(1997)
J. Mol. Biol.
, vol.271
, pp. 511-523
-
-
Pazos, F.1
Helmer-Citterich, M.2
Ausiello, G.3
Valencia, A.4
-
31
-
-
0036568293
-
Prediction of coordination number and relative solvent accessibility in proteins
-
In press
-
Pollastri, G., Baldi, P., Fariselli, P. and Casadio, R. (2001a) Prediction of coordination number and relative solvent accessibility in proteins. Proteins, 47, In press.
-
(2001)
Proteins
, vol.47
-
-
Pollastri, G.1
Baldi, P.2
Fariselli, P.3
Casadio, R.4
-
32
-
-
0036568279
-
Improving the prediction of protein secondary strucure in three and eight classes using recurrent neural networks and profiles
-
In press
-
Pollastri, G., Przybylski, D., Rost, B. and Baldi, P. (2001b) Improving the prediction of protein secondary strucure in three and eight classes using recurrent neural networks and profiles. Proteins, 47, In press.
-
(2001)
Proteins
, vol.47
-
-
Pollastri, G.1
Przybylski, D.2
Rost, B.3
Baldi, P.4
-
33
-
-
0032080921
-
Relationships between protein sequence and structure patterns based on residue contacts
-
Selbig, J. and Argos, P. (1998) Relationships between protein sequence and structure patterns based on residue contacts. Proteins: Struct. Funct. Genet., 31, 172-185.
-
(1998)
Proteins: Struct. Funct. Genet.
, vol.31
, pp. 172-185
-
-
Selbig, J.1
Argos, P.2
-
34
-
-
0028084754
-
Can three-dimensional contacts of proteins be predicted by analysis of correlated mutations?
-
Shindyalov, I.N., Kolchanov, N.A. and Sander, C. (1994) Can three-dimensional contacts of proteins be predicted by analysis of correlated mutations? Protein Eng., 7, 349-358.
-
(1994)
Protein Eng.
, vol.7
, pp. 349-358
-
-
Shindyalov, I.N.1
Kolchanov, N.A.2
Sander, C.3
-
35
-
-
0035830958
-
Prospects for ab initio protein structural genomics
-
Simons, K.T., Strauss, C. and Baker, D. (2001) Prospects for ab initio protein structural genomics. J. Mol. Biol., 306, 1191-1199.
-
(2001)
J. Mol. Biol.
, vol.306
, pp. 1191-1199
-
-
Simons, K.T.1
Strauss, C.2
Baker, D.3
-
36
-
-
0030627407
-
Recovery of protein structure from contact maps
-
Vendruscolo, M., Kussell, E. and Domany, E. (1997) Recovery of protein structure from contact maps. Fold. Des., 2, 295-306.
-
(1997)
Fold. Des.
, vol.2
, pp. 295-306
-
-
Vendruscolo, M.1
Kussell, E.2
Domany, E.3
-
37
-
-
0034255454
-
Rapid mapping of protein functional epitopes by combinatorial alanine scanning
-
Weiss, G.A., Watanabe, C.K., Zhong, A., Goddard, A. and Sidhu, S.S. (2000) Rapid mapping of protein functional epitopes by combinatorial alanine scanning. Proc. Natl Acad. Sci. USA, 97, 8950-8954.
-
(2000)
Proc. Natl Acad. Sci. USA
, vol.97
, pp. 8950-8954
-
-
Weiss, G.A.1
Watanabe, C.K.2
Zhong, A.3
Goddard, A.4
Sidhu, S.S.5
-
38
-
-
0031940246
-
An atlas of protein topology cartoons available on the World-Wide Web
-
Westhead, D.R., Hatton, D.C. and Thornton, J.M. (1998) An atlas of protein topology cartoons available on the World-Wide Web. TIBS, 23.
-
(1998)
TIBS
, vol.23
-
-
Westhead, D.R.1
Hatton, D.C.2
Thornton, J.M.3
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