-
1
-
-
26444473604
-
Real value prediction of solvent accessibility in proteins using multiple sequence alignment and secondary structure
-
16106377
-
Garg A Kaur H Raghava GP Real value prediction of solvent accessibility in proteins using multiple sequence alignment and secondary structure Proteins 2005, 61(2):318-24. 16106377
-
(2005)
Proteins
, vol.61
, Issue.2
, pp. 318-324
-
-
Garg, A.1
Kaur, H.2
Raghava, G.P.3
-
2
-
-
36448960843
-
PFRES: Protein Fold Classification by Using Evolutionary Information and Predicted Secondary Structure
-
17942446
-
Chen K Kurgan L PFRES: Protein Fold Classification by Using Evolutionary Information and Predicted Secondary Structure Bioinformatics 2007, 23:2843-50. 17942446
-
(2007)
Bioinformatics
, vol.23
, pp. 2843-2850
-
-
Chen, K.1
Kurgan, L.2
-
3
-
-
2942689229
-
Prediction of protein folding rates from the amino acid sequence-predicted secondary structure
-
428451 15184682
-
Ivankov DN Finkelstein AV Prediction of protein folding rates from the amino acid sequence-predicted secondary structure Proc Nat Acad Sci USA 2004, 101:8942-4. 428451 15184682
-
(2004)
Proc Nat Acad Sci USA
, vol.101
, pp. 8942-8944
-
-
Ivankov, D.N.1
Finkelstein, A.V.2
-
4
-
-
18844414326
-
High accuracy prediction of β-turns and their types using propensities and multiple alignments
-
15822097
-
Fuchs PF Alix AJ High accuracy prediction of β-turns and their types using propensities and multiple alignments Proteins 2005, 59:828-39. 15822097
-
(2005)
Proteins
, vol.59
, pp. 828-839
-
-
Fuchs, P.F.1
Alix, A.J.2
-
5
-
-
33748259637
-
Better prediction of the location of alpha-turns in proteins with support vector machine
-
16894602
-
Wang Y Xue Z Xu J Better prediction of the location of alpha-turns in proteins with support vector machine Proteins 2006, 65:49-54. 16894602
-
(2006)
Proteins
, vol.65
, pp. 49-54
-
-
Wang, Y.1
Xue, Z.2
Xu, J.3
-
6
-
-
33750378680
-
Predicting residue-wise contact orders in proteins by support vector regression
-
1618864 17014735
-
Song J Burrage K Predicting residue-wise contact orders in proteins by support vector regression BMC Bioinformatics 2006, 7:425. 1618864 17014735
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 425
-
-
Song, J.1
Burrage, K.2
-
7
-
-
3242887695
-
Protein structure prediction and analysis using the Robetta server
-
(Web Server) 441606 15215442
-
Kim DE Chivian D Baker D Protein structure prediction and analysis using the Robetta server Nucleic Acids Res 2004, 32(Web Server):W526-W531. 441606 15215442
-
(2004)
Nucleic Acids Res
-
-
Kim, D.E.1
Chivian, D.2
Baker, D.3
-
8
-
-
0034044314
-
The PSIPRED protein structure prediction server
-
10869041
-
McGuffin LJ Bryson K Jones DT The PSIPRED protein structure prediction server Bioinformatics 2000, 16(4):404-5. 10869041
-
(2000)
Bioinformatics
, vol.16
, Issue.4
, pp. 404-405
-
-
McGuffin, L.J.1
Bryson, K.2
Jones, D.T.3
-
9
-
-
0019443447
-
The anatomy and taxonomy of protein structure
-
7020376
-
Richardson JS The anatomy and taxonomy of protein structure Adv Protein Chem 1981, 34:167-339. 7020376
-
(1981)
Adv Protein Chem
, vol.34
, pp. 167-339
-
-
Richardson, J.S.1
-
10
-
-
0015967881
-
Conformational parameters for amino acids in helical, β-sheet and random coil regions calculated from proteins
-
4358939
-
Chou PY Fasman G Conformational parameters for amino acids in helical, β-sheet and random coil regions calculated from proteins Biochemistry 1974, 13:211-22. 4358939
-
(1974)
Biochemistry
, vol.13
, pp. 211-222
-
-
Chou, P.Y.1
Fasman, G.2
-
11
-
-
0034327349
-
Prediction of tight turns and their types in proteins
-
11038267
-
Chou KC Prediction of tight turns and their types in proteins Anal Biochem 2000, 286:1-16. 11038267
-
(2000)
Anal Biochem
, vol.286
, pp. 1-16
-
-
Chou, K.C.1
-
12
-
-
0020997912
-
Dictionary of protein secondary structure: Pattern recognition of hydrogen-bonded and geometrical features
-
6667333
-
Kabsch W Sander C Dictionary of protein secondary structure: Pattern recognition of hydrogen-bonded and geometrical features Biopolymers 1983, 22:2577-2637. 6667333
-
(1983)
Biopolymers
, vol.22
, pp. 2577-2637
-
-
Kabsch, W.1
Sander, C.2
-
15
-
-
0037648871
-
Design of beta-turn based therapeutic agents
-
12769748
-
Kee KS Jois SD Design of beta-turn based therapeutic agents Curr Pharm Des 2003, 9:1209-24. 12769748
-
(2003)
Curr Pharm Des
, vol.9
, pp. 1209-1224
-
-
Kee, K.S.1
Jois, S.D.2
-
16
-
-
0034713833
-
Role of amino acid residues at turns in the conformational stability and folding of human lysozyme
-
10913274
-
Takano K Yamagata Y Yutani K Role of amino acid residues at turns in the conformational stability and folding of human lysozyme Biochemistry 2000, 39:8655-65. 10913274
-
(2000)
Biochemistry
, vol.39
, pp. 8655-8665
-
-
Takano, K.1
Yamagata, Y.2
Yutani, K.3
-
17
-
-
0024279235
-
Analysis and prediction of the different types of β-turns in proteins
-
3184187
-
Wilmot CM Thornton JM Analysis and prediction of the different types of β-turns in proteins J Mol Biol 1988, 203:221-32. 3184187
-
(1988)
J Mol Biol
, vol.203
, pp. 221-232
-
-
Wilmot, C.M.1
Thornton, J.M.2
-
18
-
-
0025113022
-
β-Turns and their distortions: A proposed new nomenclature
-
2371257
-
Wilmot CM Thornton JM β-Turns and their distortions: A proposed new nomenclature Protein Eng 1990, 3:479-93. 2371257
-
(1990)
Protein Eng
, vol.3
, pp. 479-493
-
-
Wilmot, C.M.1
Thornton, J.M.2
-
19
-
-
0031149431
-
Prediction of beta-turns in proteins by 1-4 & 2-3 correlation model
-
Zhang CT Chou KC Prediction of beta-turns in proteins by 1-4 & 2-3 correlation model Biopolymers 1997, 41:673-702.
-
(1997)
Biopolymers
, vol.41
, pp. 673-702
-
-
Zhang, C.T.1
Chou, K.C.2
-
20
-
-
0030963006
-
Prediction of beta-turns
-
Chou KC Prediction of beta-turns J Peptide Res 1997, 49:120-144.
-
(1997)
J Peptide Res
, vol.49
, pp. 120-144
-
-
Chou, K.C.1
-
21
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
146917 9254694
-
Altschul SF Madden TL Schaffer AA Zhang J Zhang Z Miller W Lipman DJ Gapped BLAST and PSI-BLAST: A new generation of protein database search programs Nucleic Acids Res 1997, 25:3389-3402. 146917 9254694
-
(1997)
Nucleic Acids Res
, vol.25
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schaffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.J.7
-
22
-
-
0033578684
-
Protein secondary structure prediction based on position-specific scoring matrices
-
10493868
-
Jones DT Protein secondary structure prediction based on position-specific scoring matrices J Mol Biol 1999, 292:195-202. 10493868
-
(1999)
J Mol Biol
, vol.292
, pp. 195-202
-
-
Jones, D.T.1
-
23
-
-
0036568279
-
Improving the prediction of protein secondary structure in three and eight classes using recurrent neural networks and profiles
-
11933069
-
Pollastri G Przybylski D Rost B Baldi P Improving the prediction of protein secondary structure in three and eight classes using recurrent neural networks and profiles Proteins 2002, 47:228-35. 11933069
-
(2002)
Proteins
, vol.47
, pp. 228-235
-
-
Pollastri, G.1
Przybylski, D.2
Rost, B.3
Baldi, P.4
-
24
-
-
0033933636
-
Cascaded multiple classifiers for secondary structure prediction
-
2144653 10892809
-
Ouali M King RD Cascaded multiple classifiers for secondary structure prediction Protein Sci 2000, 9:1162-76. 2144653 10892809
-
(2000)
Protein Sci
, vol.9
, pp. 1162-1176
-
-
Ouali, M.1
King, R.D.2
-
25
-
-
0032900496
-
Prediction of the location and type of β-turns in proteins using neural networks
-
2144340 10338015
-
Shepherd AJ Gorse D Thornton JM Prediction of the location and type of β-turns in proteins using neural networks Protein Sci 1999, 8:1045-55. 2144340 10338015
-
(1999)
Protein Sci
, vol.8
, pp. 1045-1055
-
-
Shepherd, A.J.1
Gorse, D.2
Thornton, J.M.3
-
26
-
-
0037372098
-
Prediction of β-turns in proteins from multiple alignment using neural network
-
2312433 12592033
-
Kaur H Raghava GPS Prediction of β-turns in proteins from multiple alignment using neural network Protein Sci 2003, 12:627-34. 2312433 12592033
-
(2003)
Protein Sci
, vol.12
, pp. 627-634
-
-
Kaur, H.1
Raghava, G.P.S.2
-
27
-
-
8844252295
-
A neural network method for prediction of β-turn types in proteins using evolutionary information
-
15145798
-
Kaur H Raghava GPS A neural network method for prediction of β-turn types in proteins using evolutionary information Bioinformatics 2004, 20:2751-8. 15145798
-
(2004)
Bioinformatics
, vol.20
, pp. 2751-2758
-
-
Kaur, H.1
Raghava, G.P.S.2
-
28
-
-
49149096763
-
Prediction of beta-turns and beta-turn types by a novel bidirectional Elman-type recurrent neural network with multiple output layers (MOLEBRNN)
-
18598743
-
Kirschner A Frishman D Prediction of beta-turns and beta-turn types by a novel bidirectional Elman-type recurrent neural network with multiple output layers (MOLEBRNN) Gene 2008, 422(1-2):22-9. 18598743
-
(2008)
Gene
, vol.422
, Issue.1-2
, pp. 22-29
-
-
Kirschner, A.1
Frishman, D.2
-
29
-
-
0345832339
-
Protein β-turn prediction using nearest-neighbor method
-
14693806
-
Kim S Protein β-turn prediction using nearest-neighbor method Bioinformatics 2004, 20:40-4. 14693806
-
(2004)
Bioinformatics
, vol.20
, pp. 40-44
-
-
Kim, S.1
-
30
-
-
0035995959
-
Support vector machines for the classification and prediction of beta-turn types
-
12148778
-
Cai YD Liu XJ Xu XB Chou KC Support vector machines for the classification and prediction of beta-turn types J Peptide Sci 2002, 8:297-301. 12148778
-
(2002)
J Peptide Sci
, vol.8
, pp. 297-301
-
-
Cai, Y.D.1
Liu, X.J.2
Xu, X.B.3
Chou, K.C.4
-
31
-
-
14944366928
-
Prediction and analysis of beta-turns in proteins by support vector machine
-
15706534
-
Pham TH Satou K Ho TB Prediction and analysis of beta-turns in proteins by support vector machine Genome Inform 2003, 14:196-205. 15706534
-
(2003)
Genome Inform
, vol.14
, pp. 196-205
-
-
Pham, T.H.1
Satou, K.2
Ho, T.B.3
-
32
-
-
19544387461
-
Improved method for predicting β-turn using support vector machine
-
15797917
-
Zhang Q Yoon S Welsh WJ Improved method for predicting β-turn using support vector machine Bioinformatics 2005, 21:2370-4. 15797917
-
(2005)
Bioinformatics
, vol.21
, pp. 2370-2374
-
-
Zhang, Q.1
Yoon, S.2
Welsh, W.J.3
-
33
-
-
47549095849
-
Using support vector machine to predict beta- and gamma-turns in proteins
-
18432623
-
Hu X Li Q Using support vector machine to predict beta- and gamma-turns in proteins J Comput Chem 2008, 29(12):1867-75. 18432623
-
(2008)
J Comput Chem
, vol.29
, Issue.12
, pp. 1867-1875
-
-
Hu, X.1
Li, Q.2
-
34
-
-
0028300741
-
Combining evolutionary information and neural networks to predict protein secondary structure
-
8066087
-
Rost B Sander C Combining evolutionary information and neural networks to predict protein secondary structure Proteins 1994, 19:55-72. 8066087
-
(1994)
Proteins
, vol.19
, pp. 55-72
-
-
Rost, B.1
Sander, C.2
-
35
-
-
0036855904
-
An evaluation of β-turn prediction methods
-
12424123
-
Kaur H Raghava GPS An evaluation of β-turn prediction methods Bioinformatics 2002, 18:1508-14. 12424123
-
(2002)
Bioinformatics
, vol.18
, pp. 1508-1514
-
-
Kaur, H.1
Raghava, G.P.S.2
-
36
-
-
33747586510
-
Improving the accuracy of protein secondary structure prediction using structural alignment
-
16774686
-
Montgomerie S Sundararaj S Gallin WJ Wishart DS Improving the accuracy of protein secondary structure prediction using structural alignment BMC Bioinformatics 2006, 14:301. 16774686
-
(2006)
BMC Bioinformatics
, vol.14
, pp. 301
-
-
Montgomerie, S.1
Sundararaj, S.2
Gallin, W.J.3
Wishart, D.S.4
-
37
-
-
0033752859
-
β-and γ-turns in proteins revisited: A new set of amino acid dependent positional preferences and potential
-
10878855
-
Guruprasad K Rajkumar S β-and γ-turns in proteins revisited: a new set of amino acid dependent positional preferences and potential J Biosci 2000, 25:143-156. 10878855
-
(2000)
J Biosci
, vol.25
, pp. 143-156
-
-
Guruprasad, K.1
Rajkumar, S.2
-
38
-
-
0028205447
-
Enlarged representative set of protein structures
-
2142698 8019422
-
Hobohm U Sander C Enlarged representative set of protein structures Protein Sci 1994, 3:522. 2142698 8019422
-
(1994)
Protein Sci
, vol.3
, pp. 522
-
-
Hobohm, U.1
Sander, C.2
-
39
-
-
0030039296
-
PROMOTIF-a program to identify and analyze structural motifs in proteins
-
2143354 8745398
-
Hutchinson EG Thornton JM PROMOTIF-a program to identify and analyze structural motifs in proteins Protein Sci 1996, 5:212-220. 2143354 8745398
-
(1996)
Protein Sci
, vol.5
, pp. 212-220
-
-
Hutchinson, E.G.1
Thornton, J.M.2
-
41
-
-
0034663597
-
Application of multiple sequence alignment profiles to improve protein secondary structure prediction
-
10861942
-
Cuff JA Barton GJ Application of multiple sequence alignment profiles to improve protein secondary structure prediction Proteins 2000, 15:502-11. 10861942
-
(2000)
Proteins
, vol.15
, pp. 502-511
-
-
Cuff, J.A.1
Barton, G.J.2
-
42
-
-
9144233525
-
Database resources of the National Center for Biotechnology Information: Update
-
308807 14681353
-
Wheeler DL Church DM Edgar R Federhen S Helmberg W Madden TL Pontius JU Schuler GD Schriml LM Sequeira E Suzek TO Tatusova TA Wagner L Database resources of the National Center for Biotechnology Information: Update Nucl Acids Res 2004, 32:D35-D40. 308807 14681353
-
(2004)
Nucl Acids Res
, vol.32
-
-
Wheeler, D.L.1
Church, D.M.2
Edgar, R.3
Federhen, S.4
Helmberg, W.5
Madden, T.L.6
Pontius, J.U.7
Schuler, G.D.8
Schriml, L.M.9
Sequeira, E.10
Suzek, T.O.11
Tatusova, T.A.12
Wagner, L.13
-
44
-
-
0003120218
-
Fast training of support vector machines using sequential minimal optimization
-
MIT Press Schoelkopf B, Burges C, Smola A
-
Platt J Fast training of support vector machines using sequential minimal optimization Advances in kernel methods - support vector learning MIT Press Schoelkopf B, Burges C, Smola A 1998.
-
(1998)
Advances in Kernel Methods - Support Vector Learning
-
-
Platt, J.1
-
48
-
-
2942731012
-
An Extensive Empirical Study of Feature Selection Metrics for Text Classification
-
Forman G An Extensive Empirical Study of Feature Selection Metrics for Text Classification J Machine Learning Research 2003, 3:1289-1305.
-
(2003)
J Machine Learning Research
, vol.3
, pp. 1289-1305
-
-
Forman, G.1
-
49
-
-
34249699005
-
Prediction of flexible/rigid regions from protein sequences using k-spaced amino acid pairs
-
1863424 17437643
-
Chen K Kurgan L Ruan J Prediction of flexible/rigid regions from protein sequences using k-spaced amino acid pairs BMC Struct Biol 2007, 7:25. 1863424 17437643
-
(2007)
BMC Struct Biol
, vol.7
, pp. 25
-
-
Chen, K.1
Kurgan, L.2
Ruan, J.3
-
50
-
-
58149313191
-
Prediction of integral membrane protein type by collocated hydrophobic amino acid pairs
-
18567007
-
Chen K Jiang Y Du L Kurgan L Prediction of integral membrane protein type by collocated hydrophobic amino acid pairs J Comp Chem 2008. 18567007
-
(2008)
J Comp Chem
-
-
Chen, K.1
Jiang, Y.2
Du, L.3
Kurgan, L.4
-
52
-
-
0031381525
-
Wrappers for feature subset selection
-
Kohavi R John GH Wrappers for feature subset selection Artificial Intelligence 1997, 97(1-2):273-324.
-
(1997)
Artificial Intelligence
, vol.97
, Issue.1-2
, pp. 273-324
-
-
Kohavi, R.1
John, G.H.2
-
54
-
-
0033931867
-
Assessing the accuracy of prediction algorithms for classification: An overview
-
10871264
-
Baldi P Brunak S Chauvin Y Andersen CA Nielsen H Assessing the accuracy of prediction algorithms for classification: An overview Bioinformatics 2000, 16:412-24. 10871264
-
(2000)
Bioinformatics
, vol.16
, pp. 412-424
-
-
Baldi, P.1
Brunak, S.2
Chauvin, Y.3
Andersen, C.A.4
Nielsen, H.5
-
55
-
-
0035698737
-
EVA: Large-scale analysis of secondary structure prediction
-
11835497
-
Rost B Eyrich VA EVA: Large-scale analysis of secondary structure prediction Proteins 2001, (Suppl 5):192-9. 11835497
-
(2001)
Proteins
, Issue.SUPPL. 5
, pp. 192-199
-
-
Rost, B.1
Eyrich, V.A.2
-
56
-
-
33750402176
-
A new representation for protein secondary structure prediction based on frequent patterns
-
16940325
-
Birzele F Kramer S A new representation for protein secondary structure prediction based on frequent patterns Bioinformatics 2006, 22(21):2628-34. 16940325
-
(2006)
Bioinformatics
, vol.22
, Issue.21
, pp. 2628-2634
-
-
Birzele, F.1
Kramer, S.2
-
57
-
-
0028566270
-
Revised set of potentials for beta-turn formation in proteins
-
2142776 7756980
-
Hutchinson EG Thornton JM Revised set of potentials for beta-turn formation in proteins Protein Sci 1994, 3(12):2207-16. 2142776 7756980
-
(1994)
Protein Sci
, vol.3
, Issue.12
, pp. 2207-2216
-
-
Hutchinson, E.G.1
Thornton, J.M.2
|