-
1
-
-
30344459116
-
Critical assessment of methods of protein structure prediction (CASP) - Round VI
-
Moult J, Fidelis K, Tramontano A, Rost B, Hubbard T: Critical assessment of methods of protein structure prediction (CASP) - round VI. Proteins 2005, 61 (Suppl 7):3-7.
-
(2005)
Proteins
, vol.61
, Issue.SUPPL. 7
, pp. 3-7
-
-
Moult, J.1
Fidelis, K.2
Tramontano, A.3
Rost, B.4
Hubbard, T.5
-
2
-
-
0033997036
-
Comparison of sequence profiles. Strategies for structural predictions using sequence information
-
Rychlewski L, Jaroszewski L, Li W, Godzik A: Comparison of sequence profiles. Strategies for structural predictions using sequence information. Protein Science 2000, 9(2):232-241.
-
(2000)
Protein Science
, vol.9
, Issue.2
, pp. 232-241
-
-
Rychlewski, L.1
Jaroszewski, L.2
Li, W.3
Godzik, A.4
-
3
-
-
84959053798
-
Improving profile-profile alignment via log average scoring
-
In Edited by: Gascuel O, Moret B. Springer
-
von Öhsen N, Zimmer R: Improving profile-profile alignment via log average scoring. In Algorithms in Bioinformatics, First International Workshop, WABI Edited by: Gascuel O, Moret B. Springer; 2001:11-26.
-
(2001)
Algorithms in Bioinformatics, First International Workshop, WABI
, pp. 11-26
-
-
von Öhsen, N.1
Zimmer, R.2
-
4
-
-
0036307493
-
Within the twilight zone: A sensitive profile-profile comparison tool based on information theory
-
Yona G, Levitt M: Within the twilight zone: a sensitive profile-profile comparison tool based on information theory. J Mol Biol 2002, 315(S):1257-1275.
-
(2002)
J Mol Biol
, vol.315
, Issue.5
, pp. 1257-1275
-
-
Yona, G.1
Levitt, M.2
-
5
-
-
2442663920
-
Scoring profile-to-profile sequence alignments
-
Wang G, Dunbrack RL: Scoring profile-to-profile sequence alignments. Protein Sci 2004, 13(6):1612-1626.
-
(2004)
Protein Sci
, vol.13
, Issue.6
, pp. 1612-1626
-
-
Wang, G.1
Dunbrack, R.L.2
-
6
-
-
11344292852
-
Fold recognition by combining sequence profiles derived from evolution and from depth-dependent structural alignment of fragments
-
Zhou H, Zhou Y: Fold recognition by combining sequence profiles derived from evolution and from depth-dependent structural alignment of fragments. Proteins 2005, 58(2):321-328.
-
(2005)
Proteins
, vol.58
, Issue.2
, pp. 321-328
-
-
Zhou, H.1
Zhou, Y.2
-
7
-
-
30344447955
-
Assessment of predictions submitted for the CASP6 comparative modelling category
-
Tress M, Ezkurdia I, Graña O, López G, Valencia A: Assessment of predictions submitted for the CASP6 comparative modelling category. Proteins 2005:27-45.
-
Proteins
, vol.2005
, pp. 27-45
-
-
Tress, M.1
Ezkurdia, I.2
Graña, O.3
López, G.4
Valencia, A.5
-
8
-
-
30344475200
-
Progress over the first decade of GASP experiments
-
Kryshtafovych A, Venclovas C, Fidelis K, Moult J: Progress over the first decade of GASP experiments. Proteins 2005, 61(suppl 7): 225-236.
-
(2005)
Proteins
, vol.61
, Issue.SUPPL. 7
, pp. 225-236
-
-
Kryshtafovych, A.1
Venclovas, C.2
Fidelis, K.3
Moult, J.4
-
9
-
-
0036081436
-
In search for more accurate alignments in the twilight zone
-
Jaroszewski L, Li W, Godzik A: In search for more accurate alignments in the twilight zone. Protein Sci 2002, 11(7):1702-1713.
-
(2002)
Protein Sci
, vol.11
, Issue.7
, pp. 1702-1713
-
-
Jaroszewski, L.1
Li, W.2
Godzik, A.3
-
10
-
-
0037414421
-
In silico protein recombination: Enhancing template and sequence alignment selection for comparative protein modelling
-
Contreras-Moreira B, Fitzjohn PW, Bates PA: In silico protein recombination: enhancing template and sequence alignment selection for comparative protein modelling. J Mol Biol 2003, 328(3):593-608.
-
(2003)
J Mol Biol
, vol.328
, Issue.3
, pp. 593-608
-
-
Contreras-Moreira, B.1
Fitzjohn, P.W.2
Bates, P.A.3
-
11
-
-
0141978673
-
Comparative protein structure modeling by iterative alignment, model building and model assessment
-
John B, Sali A: Comparative protein structure modeling by iterative alignment, model building and model assessment. Nucleic Acids Res 2003, 31(14):3982-3992.
-
(2003)
Nucleic Acids Res
, vol.31
, Issue.14
, pp. 3982-3992
-
-
John, B.1
Sali, A.2
-
12
-
-
24144437430
-
Improving sequence-based fold recognition by using 3D model quality assessment
-
Pettitt CS, McGuffin LJ, Jones DT: Improving sequence-based fold recognition by using 3D model quality assessment. Bioinformatics 2005, 21(17):3509-3515.
-
(2005)
Bioinformatics
, vol.21
, Issue.17
, pp. 3509-3515
-
-
Pettitt, C.S.1
McGuffin, L.J.2
Jones, D.T.3
-
13
-
-
28144448406
-
The Victor/FRST Function for Model Quality Estimation
-
Tosatto SCE: The Victor/FRST Function for Model Quality Estimation. Journal of Computational Biology 2005, 12(10):1316-1327.
-
(2005)
Journal of Computational Biology
, vol.12
, Issue.10
, pp. 1316-1327
-
-
Tosatto, S.C.E.1
-
14
-
-
33645817062
-
Large-scale prediction of protein structure and function from sequence
-
Tosatto SCE, Toppo S: Large-scale prediction of protein structure and function from sequence. Current Pharmaceutical Design 2006, 12(17):2067-2086.
-
(2006)
Current Pharmaceutical Design
, vol.12
, Issue.17
, pp. 2067-2086
-
-
Tosatto, S.C.E.1
Toppo, S.2
-
15
-
-
84874667719
-
-
CAFASP4 MQAP
-
Fischer D: CAFASP4 MQAP. [http://www.cs.bgu.ac.il/~dfisch/CAFASP4/ mqap.html].
-
-
-
Fischer, D.1
-
16
-
-
0032605828
-
Processing and analysis of CASP3 protein structure predictions
-
Zemla A, Venclovas C, Moult J, Fidelis K: Processing and analysis of CASP3 protein structure predictions. Proteins 1999:22-29.
-
(1999)
Proteins
, pp. 22-29
-
-
Zemla, A.1
Venclovas, C.2
Moult, J.3
Fidelis, K.4
-
17
-
-
0033670439
-
MaxSub: An automated measure for the assessment of protein structure prediction quality
-
Siew N, Elofsson A, Rychlewski L, Fischer D: MaxSub: an automated measure for the assessment of protein structure prediction quality. Bioinformatics 2000, 16(9):776-785.
-
(2000)
Bioinformatics
, vol.16
, Issue.9
, pp. 776-785
-
-
Siew, N.1
Elofsson, A.2
Rychlewski, L.3
Fischer, D.4
-
18
-
-
10344232638
-
Scoring function for automated assessment of protein structure template quality
-
Zhang Y, Skolnick J: Scoring function for automated assessment of protein structure template quality. Proteins 2004, 57(4):702-710.
-
(2004)
Proteins
, vol.57
, Issue.4
, pp. 702-710
-
-
Zhang, Y.1
Skolnick, J.2
-
19
-
-
0026610767
-
Assessment of protein models with three-dimensional profiles
-
Lüthy R, Bowie J, Eisenberg D: Assessment of protein models with three-dimensional profiles. Nature 1992, 356(6364):83-85.
-
(1992)
Nature
, vol.356
, Issue.6364
, pp. 83-85
-
-
Lüthy, R.1
Bowie, J.2
Eisenberg, D.3
-
20
-
-
0027490731
-
Recognition of errors in three-dimensional structures of proteins
-
Sippl M: Recognition of errors in three-dimensional structures of proteins. Proteins 1993, 17(4):355-362.
-
(1993)
Proteins
, vol.17
, Issue.4
, pp. 355-362
-
-
Sippl, M.1
-
21
-
-
33645972948
-
Servers for protein structure prediction
-
Fischer D: Servers for protein structure prediction. Curr Opin Struct Biol 2006, 16:178-182.
-
(2006)
Curr Opin Struct Biol
, vol.16
, pp. 178-182
-
-
Fischer, D.1
-
22
-
-
0043130635
-
Profile-profile alignment: A powerful tool for protein structure prediction
-
von Öhsen N, Sommer I, Zimmer R: Profile-profile alignment: a powerful tool for protein structure prediction. Pac Symp Biocomput 2003, 8:252-263.
-
(2003)
Pac Symp Biocomput
, vol.8
, pp. 252-263
-
-
von Öhsen, N.1
Sommer, I.2
Zimmer, R.3
-
23
-
-
4143083332
-
Arby: Automatic protein structure prediction using profile-profile alignment and confidence measures
-
von Öhsen N, Sommer I, Zimmer R, Lengauer T: Arby: automatic protein structure prediction using profile-profile alignment and confidence measures. Bioinformatics 2004, 20(14):2228-2235.
-
(2004)
Bioinformatics
, vol.20
, Issue.14
, pp. 2228-2235
-
-
von Öhsen, N.1
Sommer, I.2
Zimmer, R.3
Lengauer, T.4
-
24
-
-
30344443955
-
Prediction of CASP-6 structures using automated Robetta protocols
-
Chivian D, Kim DE, Malmström L, Schonbrun J, Rohl CA, Baker D: Prediction of CASP-6 structures using automated Robetta protocols. Proteins 2005:157-166.
-
(2005)
Proteins
, pp. 157-166
-
-
Chivian, D.1
Kim, D.E.2
Malmström, L.3
Schonbrun, J.4
Rohl, C.A.5
Baker, D.6
-
25
-
-
0036096608
-
A divide and conquer approach to fast loop modeling
-
Tosatto SCE, Bindewald E, Hesser J, Männer R: A divide and conquer approach to fast loop modeling. Protein Eng 2002, 15(4):279-286.
-
(2002)
Protein Eng
, vol.15
, Issue.4
, pp. 279-286
-
-
Tosatto, S.C.E.1
Bindewald, E.2
Hesser, J.3
Männer, R.4
-
26
-
-
0042511005
-
A graph-theory algorithm for rapid protein side-chain prediction
-
Canutescu A, Shelenkov A, Dunbrack R: A graph-theory algorithm for rapid protein side-chain prediction. Protein Sci 2003, 12(9):2001-2014.
-
(2003)
Protein Sci
, vol.12
, Issue.9
, pp. 2001-2014
-
-
Canutescu, A.1
Shelenkov, A.2
Dunbrack, R.3
-
27
-
-
0032488962
-
An all-atom distance-dependent conditional probability discriminatory function for protein structure prediction
-
Samudrala R, Moult J: An all-atom distance-dependent conditional probability discriminatory function for protein structure prediction. J Mol Biol 1998, 275(5):895-916.
-
(1998)
J Mol Biol
, vol.275
, Issue.5
, pp. 895-916
-
-
Samudrala, R.1
Moult, J.2
-
28
-
-
0042622381
-
LGA: A method for finding 3D similarities in protein structures
-
Zemla A: LGA: A method for finding 3D similarities in protein structures. Nucleic Acids Res 2003, 31(13):3370-3374.
-
(2003)
Nucleic Acids Res
, vol.31
, Issue.13
, pp. 3370-3374
-
-
Zemla, A.1
-
29
-
-
0003243224
-
Probabilistic outputs for support vector machines and comparison to regularized likelihood methods
-
In Edited by: Smola A, Bartlett P, Schoelkopf B, Schuurmans D. MIT Press
-
Platt J: Probabilistic outputs for support vector machines and comparison to regularized likelihood methods. In Advances in Large Margin Classifiers Edited by: Smola A, Bartlett P, Schoelkopf B, Schuurmans D. MIT Press; 1999:61-74.
-
(1999)
Advances in Large Margin Classifiers
, pp. 61-74
-
-
Platt, J.1
-
31
-
-
0003710380
-
LIBSVM: A library for support vector machines
-
Chang CC, Lin CJ: LIBSVM: a library for support vector machines. 2001 [http://www.csie.ntu.edu.tw/~cjlin/libsvm].
-
(2001)
-
-
Chang, C.C.1
Lin, C.J.2
-
32
-
-
0346494941
-
SCOP database in 2004: Refinements integrate structure and sequence family data
-
Andreeva A, Howorth D, Brenner SE, Hubbard TJP, Chothia C, Murzin AG: SCOP database in 2004: refinements integrate structure and sequence family data. Nucleic Acids Res 2004:D226-D229.
-
(2004)
Nucleic Acids Res
-
-
Andreeva, A.1
Howorth, D.2
Brenner, S.E.3
Hubbard, T.J.P.4
Chothia, C.5
Murzin, A.G.6
-
33
-
-
0033977581
-
The ASTRAL compendium for protein structure and sequence analysis
-
Brenner S, Koehl P, Levitt M: The ASTRAL compendium for protein structure and sequence analysis. Nucleic Acids Res 2000, 28:254-256.
-
(2000)
Nucleic Acids Res
, vol.28
, pp. 254-256
-
-
Brenner, S.1
Koehl, P.2
Levitt, M.3
-
34
-
-
0348129526
-
The ASTRAL Compendium in 2004
-
Chandonia JM, Hon G, Walker NS, Conte LL, Koehl P, Levitt M, Brenner SE: The ASTRAL Compendium in 2004. Nucleic Acids Res 2004:D189-92.
-
(2004)
Nucleic Acids Res
-
-
Chandonia, J.M.1
Hon, G.2
Walker, N.S.3
Conte, L.L.4
Koehl, P.5
Levitt, M.6
Brenner, S.E.7
|