-
1
-
-
0034635337
-
Exploring local and non-local interactions for protein stability by structural motif engineering
-
10656826
-
Exploring local and non-local interactions for protein stability by structural motif engineering. M Niggemann B Steipe, J Mol Biol 2000 296 181 195 10656826
-
(2000)
J Mol Biol
, vol.296
, pp. 181-195
-
-
Niggemann, M.1
Steipe, B.2
-
3
-
-
0033047710
-
A neural network based predictor of residue contacts in proteins
-
10065706
-
A neural network based predictor of residue contacts in proteins. P Fariselli R Casadio, Protein Engineering 1999 12 15 21 10065706
-
(1999)
Protein Engineering
, vol.12
, pp. 15-21
-
-
Fariselli, P.1
Casadio, R.2
-
4
-
-
0030627407
-
Recovery of protein structure from contact maps
-
9377713
-
Recovery of protein structure from contact maps. M Vendruscolo E Kussell E Domany, Fold Des 1997 2 295 306 9377713
-
(1997)
Fold des
, vol.2
, pp. 295-306
-
-
Vendruscolo, M.1
Kussell, E.2
Domany, E.3
-
5
-
-
0041719954
-
Prediction of contact maps by GIOHMMs and recurrent neural networks using lateral propagation from all four cardinal corners
-
12169532
-
Prediction of contact maps by GIOHMMs and recurrent neural networks using lateral propagation from all four cardinal corners. G Pollastri P Baldi, Bioinformatics 2002 18 62 S70 12169532
-
(2002)
Bioinformatics
, vol.18
-
-
Pollastri, G.1
Baldi, P.2
-
6
-
-
13944252115
-
Prediction of distant residue contacts with the use of evolutionary information
-
15645442
-
Prediction of distant residue contacts with the use of evolutionary information. S Vicatos VBR Boojala Y Kaznessis, Proteins 2005 58 935 949 15645442
-
(2005)
Proteins
, vol.58
, pp. 935-949
-
-
Vicatos, S.1
Boojala, V.B.R.2
Kaznessis, Y.3
-
7
-
-
24744453057
-
Striped sheets and protein contact prediction
-
15262803
-
Striped sheets and protein contact prediction. RM MacCallum, Bioinformatics 2004 20 Suppl 1 224 i231 15262803
-
(2004)
Bioinformatics
, vol.20
, Issue.SUPPL 1
-
-
MacCallum, R.M.1
-
8
-
-
0035663988
-
Prediction of contact maps with neural networks and correlated mutations
-
11742102
-
Prediction of contact maps with neural networks and correlated mutations. P Fariselli O Olmea A Valencia R Casadio, Protein Engineering 2001 14 835 843 11742102
-
(2001)
Protein Engineering
, vol.14
, pp. 835-843
-
-
Fariselli, P.1
Olmea, O.2
Valencia, A.3
Casadio, R.4
-
9
-
-
43749113791
-
Predicting contact map using radial basis function neural network with conformational energy function
-
18490258
-
Predicting Contact Map Using Radial Basis Function Neural Network with Conformational Energy Function. P Chen DS Huang XM Zhao X Li, Int J Bioinform Res Appl 2008 4 123 136 18490258
-
(2008)
Int J Bioinform Res Appl
, vol.4
, pp. 123-136
-
-
Chen, P.1
Huang, D.S.2
Zhao, X.M.3
Li, X.4
-
10
-
-
34247247779
-
Improved residue contact prediction using support vector machines and a large feature set
-
17407573
-
Improved residue contact prediction using support vector machines and a large feature set. J Cheng P Baldi, BMC Bioinformatics 2007 8 113 17407573
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 113
-
-
Cheng, J.1
Baldi, P.2
-
11
-
-
45749134979
-
Predicting key long-range interaction sites by b-factors
-
18537737
-
Predicting Key Long-Range Interaction Sites by B-Factors. P Chen K Han X Li DS Huang, Protein Pept Lett 2008 15 5 478 483 18537737
-
(2008)
Protein Pept Lett
, vol.15
, Issue.5
, pp. 478-483
-
-
Chen, P.1
Han, K.2
Li, X.3
Huang, D.S.4
-
12
-
-
21444454088
-
PROFcon: Novel prediction of long-range contacts
-
15890748
-
PROFcon: novel prediction of long-range contacts. M Punta B Rost, Bioinformatics 2005 21 2960 2968 15890748
-
(2005)
Bioinformatics
, vol.21
, pp. 2960-2968
-
-
Punta, M.1
Rost, B.2
-
13
-
-
33745610096
-
A two-stage approach for improved prediction of residue contact maps
-
16573808
-
A two-stage approach for improved prediction of residue contact maps. A Vullo L Walsh G Pollastri, BMC Bioinformatics 2006 7 180 16573808
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 180
-
-
Vullo, A.1
Walsh, L.2
Pollastri, G.3
-
14
-
-
41349114023
-
A comprehensive assessment of sequence-based and template-based methods for protein contact prediction
-
18296462
-
A comprehensive assessment of sequence-based and template-based methods for protein contact prediction. S Wu Y Zhang, Bioinformatics 2008 24 924 931 18296462
-
(2008)
Bioinformatics
, vol.24
, pp. 924-931
-
-
Wu, S.1
Zhang, Y.2
-
15
-
-
67849110005
-
NNcon: Improved protein contact map prediction using 2D-recursive neural networks
-
19420062
-
NNcon: improved protein contact map prediction using 2D-recursive neural networks. AN Tegge Z Wang J Eickholt J Cheng, Nucleic Acids Research 2009 37 515 W518 19420062
-
(2009)
Nucleic Acids Research
, vol.37
-
-
Tegge, A.N.1
Wang, Z.2
Eickholt, J.3
Cheng, J.4
-
16
-
-
51749083506
-
Prediction of long-range contacts from sequence profile
-
Orlando, FL, USA
-
Prediction of Long-range Contacts from Sequence Profile. P Chen B Wang HS Wong DS Huang, International Joint Conference on Neural Networks Orlando, FL, USA 2007 938 943
-
(2007)
International Joint Conference on Neural Networks
, pp. 938-943
-
-
Chen, P.1
Wang, B.2
Wong, H.S.3
Huang, D.S.4
-
17
-
-
0031406438
-
Protein distance constraints predicted by neural networks and probability density functions
-
9514112
-
Protein distance constraints predicted by neural networks and probability density functions. O Lund K Frimand J Gorodkin H Bohr J Bohr J Hansen S Brunak, Protein Eng 1997 10 1241 1248 9514112
-
(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
-
19
-
-
0029097099
-
Global Fold Determination from a Small Number of Distance Restraints
-
7643405
-
Global Fold Determination from a Small Number of Distance Restraints. A Aszodi MJ Gradwell WR Taylor, Journal of Molecular Biology 1995 251 2 308 326 7643405
-
(1995)
Journal of Molecular Biology
, vol.251
, Issue.2
, pp. 308-326
-
-
Aszodi, A.1
Gradwell, M.J.2
Taylor, W.R.3
-
20
-
-
2442676589
-
Automated structure prediction of weakly homologous proteins on a genomic scal
-
15126668
-
Automated structure prediction of weakly homologous proteins on a genomic scal. Y Zhang J Skolnick, PNAS 2004 101 7594 7599 15126668
-
(2004)
PNAS
, vol.101
, pp. 7594-7599
-
-
Zhang, Y.1
Skolnick, J.2
-
21
-
-
0031575423
-
MONSTER: A method for folding globular Proteins with a small number of distance restraints
-
9020984
-
MONSTER: A method for folding globular Proteins with a small number of distance restraints. J Skolnick A Kolinski A Ortiz, J Mol Biol 1997 265 217 241 9020984
-
(1997)
J Mol Biol
, vol.265
, pp. 217-241
-
-
Skolnick, J.1
Kolinski, A.2
Ortiz, A.3
-
22
-
-
0032613288
-
Ab initio folding of proteins using restraints derived from evolutionary information
-
10526366
-
Ab initio folding of proteins using restraints derived from evolutionary information. AR Ortiz A Kolinski P Rotkiewicz B Ilkowski J Skolnick, Proteins 1999 Suppl 3 177 185 10526366
-
(1999)
Proteins
, vol.3
, pp. 177-185
-
-
Ortiz, A.R.1
Kolinski, A.2
Rotkiewicz, P.3
Ilkowski, B.4
Skolnick, J.5
-
23
-
-
0041843696
-
TOUCHSTONE II: A new approach to ab initio protein structure prediction
-
TOUCHSTONE II: a new approach to ab initio protein structure prediction. Y Zhang A Kolinski J Skolnick, Biophysical Journal 2003 85 1145 1164 12885659 (Pubitemid 36909676)
-
(2003)
Biophysical Journal
, vol.85
, Issue.2
, pp. 1145-1164
-
-
Zhang, Y.1
Kolinski, A.2
Skolnick, J.3
-
24
-
-
30344453347
-
CASP6 assessment of contact prediction
-
16187364
-
CASP6 assessment of contact prediction. O Grana D Baker R MacCallum J Meiler M Punta B Rost M Tress A Valencia, Proteins 2005 61 214 224 16187364
-
(2005)
Proteins
, vol.61
, pp. 214-224
-
-
Grana, O.1
Baker, D.2
MacCallum, R.3
Meiler, J.4
Punta, M.5
Rost, B.6
Tress, M.7
Valencia, A.8
-
25
-
-
30344459116
-
Critical assessment of methods of protein structure prediction (CASP) - Round VI
-
16187341
-
Critical assessment of methods of protein structure prediction (CASP) - round VI. J Moult K Fidelis A Tramontano B Rost T Hubbard, Proteins 2005 61 3 7 16187341
-
(2005)
Proteins
, vol.61
, pp. 3-7
-
-
Moult, J.1
Fidelis, K.2
Tramontano, A.3
Rost, B.4
Hubbard, T.5
-
26
-
-
0035703008
-
Assessment of novel fold targets in CASP4: Predictions of three-dimensional structures, secondary structures, and interresidue contacts
-
11835487
-
Assessment of novel fold targets in CASP4: predictions of three-dimensional structures, secondary structures, and interresidue contacts. A Lesk LL Conte T Hubbard, Proteins 2001 Suppl 5 98 118 11835487
-
(2001)
Proteins
, vol.5
, pp. 98-118
-
-
Lesk, A.1
Conte, L.L.2
Hubbard, T.3
-
27
-
-
0035698589
-
CAFASP-2: The second critical assessment of fully automated structure prediction methods
-
CAFASP-2: the second critical assessment of fully automated structure prediction methods. D Fischer A Elofsson L Rychlewski F Pazos A Valencia A Godzik B Rost A Ortiz R Dunbrack, Proteins 2001 45 171 183
-
(2001)
Proteins
, vol.45
, pp. 171-183
-
-
Fischer, D.1
Elofsson, A.2
Rychlewski, L.3
Pazos, F.4
Valencia, A.5
Godzik, A.6
Rost, B.7
Ortiz, A.8
Dunbrack, R.9
-
29
-
-
84860507958
-
Three-stage prediction of protein beta-sheets by neural networks, alignments, and graph algorithms
-
15961501
-
Three-Stage Prediction of Protein Beta-Sheets by Neural Networks, Alignments, and Graph Algorithms. J Cheng P Baldi, Bioinformatics 2005 21 75 i84 15961501
-
(2005)
Bioinformatics
, vol.21
-
-
Cheng, J.1
Baldi, P.2
-
30
-
-
33749139123
-
Distill: A suite of web servers for the prediction of one-, two- and three-dimensional structural features of proteins
-
16953874
-
Distill: a suite of web servers for the prediction of one-, two- and three-dimensional structural features of proteins. D Bau AJ Martin C Mooney A Vullo I Walsh G Pollastri, BMC Bioinformatics 2006 7 402 16953874
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 402
-
-
Bau, D.1
Martin, A.J.2
Mooney, C.3
Vullo, A.4
Walsh, I.5
Pollastri, G.6
-
31
-
-
4043170491
-
Protein contact prediction using patterns of correlation
-
15281121
-
Protein contact prediction using patterns of correlation. N Hamilton K Burrage M Ragan T Huber, Proteins 2004 56 679 684 15281121
-
(2004)
Proteins
, vol.56
, pp. 679-684
-
-
Hamilton, N.1
Burrage, K.2
Ragan, M.3
Huber, T.4
-
32
-
-
0032438987
-
Hidden Markov models for detecting remote protein homologies
-
9927713
-
Hidden Markov models for detecting remote protein homologies. K Karplus C Barrett R Hughey, Bioinformatics 1998 14 846 856 9927713
-
(1998)
Bioinformatics
, vol.14
, pp. 846-856
-
-
Karplus, K.1
Barrett, C.2
Hughey, R.3
-
34
-
-
0037250308
-
PDB-REPRDB: A database of representative protein chains from the Protein Data Bank (PDB) in 2003
-
12520060
-
PDB-REPRDB: a database of representative protein chains from the Protein Data Bank (PDB) in 2003. T Noguchi Y Akiyama, Nucleic Acids Res 2003 31 492 493 12520060
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 492-493
-
-
Noguchi, T.1
Akiyama, Y.2
-
35
-
-
12944257228
-
The ConSurf-HSSP database: The mapping of evolutionary conservation among homologs onto PDB structures
-
15614759
-
The ConSurf-HSSP Database: The Mapping of Evolutionary Conservation Among Homologs Onto PDB Structures. F Glaser Y Rosenberg A Kessel T Pupko N Ben-Tal, Proteins 2005 58 610 617 15614759
-
(2005)
Proteins
, vol.58
, pp. 610-617
-
-
Glaser, F.1
Rosenberg, Y.2
Kessel, A.3
Pupko, T.4
Ben-Tal, N.5
-
37
-
-
0031841279
-
The HSSP database of protein structure-sequence alignments and family profiles
-
9399862
-
The HSSP database of protein structure-sequence alignments and family profiles. C Dodge R Schneider C Sander, Nucleic Acids Res 1998 26 313 315 9399862
-
(1998)
Nucleic Acids Res
, vol.26
, pp. 313-315
-
-
Dodge, C.1
Schneider, R.2
Sander, C.3
-
38
-
-
0346688667
-
An optimal structure-discriminative amino acid index for protein fold recognition
-
14695283
-
An Optimal Structure-Discriminative Amino Acid Index for Protein Fold Recognition. RHJ Leary B Rosen P Jambeckz, Biophysical Journal 2004 86 411 419 14695283
-
(2004)
Biophysical Journal
, vol.86
, pp. 411-419
-
-
Leary, R.H.J.1
Rosen, B.2
Jambeckz, P.3
-
43
-
-
0242299155
-
CAFASP3: The third critical assessment of fully automated structure prediction methods
-
14579340
-
CAFASP3: the third critical assessment of fully automated structure prediction methods. D Fischer L Rychlewski RL Dunbrack AR Ortiz A Elofsson, Proteins 2003 53 Suppl 6 503 516 14579340
-
(2003)
Proteins
, vol.53
, Issue.SUPPL 6
, pp. 503-516
-
-
Fischer, D.1
Rychlewski, L.2
Dunbrack, R.L.3
Ortiz, A.R.4
Elofsson, A.5
|