-
1
-
-
31444455638
-
Novel 2D maps and coupling numbers for protein sequences. The first QSAR study of polygalacturonases; isolation and prediction of a novel sequence from Psidium guajava L
-
Aguero-Chapin G., Gonzalez-Diaz H., Molina R., Varona-Santos J., Uriarte E., and Gonzalez-Diaz Y. Novel 2D maps and coupling numbers for protein sequences. The first QSAR study of polygalacturonases; isolation and prediction of a novel sequence from Psidium guajava L. FEBS Lett. 580 (2006) 723-730
-
(2006)
FEBS Lett.
, vol.580
, pp. 723-730
-
-
Aguero-Chapin, G.1
Gonzalez-Diaz, H.2
Molina, R.3
Varona-Santos, J.4
Uriarte, E.5
Gonzalez-Diaz, Y.6
-
2
-
-
0030782481
-
How are model protein structures distributed in sequence space?
-
Bornberg-Bauer E. How are model protein structures distributed in sequence space?. Biophys. J. 73 (1997) 2393-2403
-
(1997)
Biophys. J.
, vol.73
, pp. 2393-2403
-
-
Bornberg-Bauer, E.1
-
3
-
-
34548266731
-
Current and future clinical strategies in colon cancer prevention and the emerging role of chemoprevention
-
Boursi B., and Arber N. Current and future clinical strategies in colon cancer prevention and the emerging role of chemoprevention. Curr. Pharm. Des. 13 (2007) 2274-2282
-
(2007)
Curr. Pharm. Des.
, vol.13
, pp. 2274-2282
-
-
Boursi, B.1
Arber, N.2
-
4
-
-
34250845013
-
Proteometric study of ghrelin receptor function variations upon mutations using amino acid sequence autocorrelation vectors and genetic algorithm-based least square support vector machines
-
Caballero J., Fernandez L., Garriga M., Abreu J.I., Collina S., and Fernandez M. Proteometric study of ghrelin receptor function variations upon mutations using amino acid sequence autocorrelation vectors and genetic algorithm-based least square support vector machines. J. Mol. Graph Model. 26 (2007) 166-178
-
(2007)
J. Mol. Graph Model.
, vol.26
, pp. 166-178
-
-
Caballero, J.1
Fernandez, L.2
Garriga, M.3
Abreu, J.I.4
Collina, S.5
Fernandez, M.6
-
5
-
-
20844436424
-
Predicting enzyme subclass by functional domain composition and pseudo amino acid composition
-
Cai Y.D., and Chou K.C. Predicting enzyme subclass by functional domain composition and pseudo amino acid composition. J. Proteome Res. 4 (2005) 967-971
-
(2005)
J. Proteome Res.
, vol.4
, pp. 967-971
-
-
Cai, Y.D.1
Chou, K.C.2
-
6
-
-
34547364589
-
Computational chemistry development of a unified free energy Markov model for the distribution of 1300 chemicals to 38 different environmental or biological systems
-
Cruz-Monteagudo M., González-Díaz H., Agüero-Chapin G., Santana L., Borges F., Domínguez R.E., Podda G., and Uriarte E. Computational chemistry development of a unified free energy Markov model for the distribution of 1300 chemicals to 38 different environmental or biological systems. J. Comput. Chem. 28 (2007) 1909-1922
-
(2007)
J. Comput. Chem.
, vol.28
, pp. 1909-1922
-
-
Cruz-Monteagudo, M.1
González-Díaz, H.2
Agüero-Chapin, G.3
Santana, L.4
Borges, F.5
Domínguez, R.E.6
Podda, G.7
Uriarte, E.8
-
7
-
-
45649085013
-
Predicting protein structural class based on multi-features fusion
-
Chen C., Chen L.X., Zou X.Y., and Cai P.X. Predicting protein structural class based on multi-features fusion. J. Theor Biol. 253 (2008) 388-392
-
(2008)
J. Theor Biol.
, vol.253
, pp. 388-392
-
-
Chen, C.1
Chen, L.X.2
Zou, X.Y.3
Cai, P.X.4
-
8
-
-
33744983303
-
A branch and bound algorithm for the protein folding problem in the HP lattice model
-
Chen M., and Huang W.Q. A branch and bound algorithm for the protein folding problem in the HP lattice model. Genomics Proteomics Bioinformatics 3 (2005) 225-230
-
(2005)
Genomics Proteomics Bioinformatics
, vol.3
, pp. 225-230
-
-
Chen, M.1
Huang, W.Q.2
-
9
-
-
65349136398
-
BSFINDER: finding binding sites of HCV proteins using a support vector machine
-
Chen Y., and Han K. BSFINDER: finding binding sites of HCV proteins using a support vector machine. Protein Peptide Lett. 16 (2009) 373-382
-
(2009)
Protein Peptide Lett.
, vol.16
, pp. 373-382
-
-
Chen, Y.1
Han, K.2
-
10
-
-
33644760365
-
Shaping up the protein folding funnel by local interaction: lesson from a structure prediction study
-
Chikenji G., Fujitsuka Y., and Takada S. Shaping up the protein folding funnel by local interaction: lesson from a structure prediction study. Proc. Natl. Acad. Sci. USA 103 (2006) 3141-3146
-
(2006)
Proc. Natl. Acad. Sci. USA
, vol.103
, pp. 3141-3146
-
-
Chikenji, G.1
Fujitsuka, Y.2
Takada, S.3
-
11
-
-
0345305854
-
Prediction and classification of protein subcellular location-sequence-order effect and pseudo amino acid composition
-
Chou K.C., and Cai Y.D. Prediction and classification of protein subcellular location-sequence-order effect and pseudo amino acid composition. J. Cell Biochem. 90 (2003) 1250-1260
-
(2003)
J. Cell Biochem.
, vol.90
, pp. 1250-1260
-
-
Chou, K.C.1
Cai, Y.D.2
-
12
-
-
18344391868
-
Prediction of membrane protein types by incorporating amphipathic effects
-
Chou K.C., and Cai Y.D. Prediction of membrane protein types by incorporating amphipathic effects. J. Chem. Inf. Model. 45 (2005) 407-413
-
(2005)
J. Chem. Inf. Model.
, vol.45
, pp. 407-413
-
-
Chou, K.C.1
Cai, Y.D.2
-
13
-
-
34548606295
-
Review: recent progresses in protein subcellular location prediction
-
Chou K.C., and Shen H.B. Review: recent progresses in protein subcellular location prediction. Anal. Biochem. 370 (2007) 1-16
-
(2007)
Anal. Biochem.
, vol.370
, pp. 1-16
-
-
Chou, K.C.1
Shen, H.B.2
-
14
-
-
53149132374
-
ProtIdent: a web server for identifying proteases and their types by fusing functional domain and sequential evolution information
-
Chou K.C., and Shen H.B. ProtIdent: a web server for identifying proteases and their types by fusing functional domain and sequential evolution information. Biochem. Biophys. Res. Commun. 376 (2008) 321-325
-
(2008)
Biochem. Biophys. Res. Commun.
, vol.376
, pp. 321-325
-
-
Chou, K.C.1
Shen, H.B.2
-
15
-
-
39449105071
-
Cell-PLoc: a package of web-servers for predicting subcellular localization of proteins in various organisms
-
Chou K.C., and Shen H.B. Cell-PLoc: a package of web-servers for predicting subcellular localization of proteins in various organisms. Nat. Protoc. 3 (2008) 153-162
-
(2008)
Nat. Protoc.
, vol.3
, pp. 153-162
-
-
Chou, K.C.1
Shen, H.B.2
-
16
-
-
70349613231
-
FoldRate: a web-server for predicting protein folding rates from primary sequence
-
Chou K.C., and Shen H.B. FoldRate: a web-server for predicting protein folding rates from primary sequence. The Open Bioinformatics Journal. 3 (2009) 31-50
-
(2009)
The Open Bioinformatics Journal.
, vol.3
, pp. 31-50
-
-
Chou, K.C.1
Shen, H.B.2
-
17
-
-
0029157083
-
Review: prediction of protein structural classes
-
Chou K.C., and Zhang C.T. Review: prediction of protein structural classes. Crit. Rev. Biochem. Mol. Biol. 30 (1995) 275-349
-
(1995)
Crit. Rev. Biochem. Mol. Biol.
, vol.30
, pp. 275-349
-
-
Chou, K.C.1
Zhang, C.T.2
-
18
-
-
0023226747
-
ROC steady: a receiver operating characteristic curve that is invariant relative to selection bias
-
Diamond G.A. ROC steady: a receiver operating characteristic curve that is invariant relative to selection bias. Med. Decis. Making 7 (1987) 238-243
-
(1987)
Med. Decis. Making
, vol.7
, pp. 238-243
-
-
Diamond, G.A.1
-
19
-
-
65349165718
-
Prediction of cell wall lytic enzymes using Chou's amphiphilic pseudo amino acid composition
-
Ding H., Luo L., and Lin H. Prediction of cell wall lytic enzymes using Chou's amphiphilic pseudo amino acid composition. Protein Peptide Lett. 16 (2009) 351-355
-
(2009)
Protein Peptide Lett.
, vol.16
, pp. 351-355
-
-
Ding, H.1
Luo, L.2
Lin, H.3
-
20
-
-
67649306593
-
Using maximum entropy model to predict protein secondary structure with single sequence
-
Ding Y.S., Zhang T.L., Gu Q., Zhao P.Y., and Chou K.C. Using maximum entropy model to predict protein secondary structure with single sequence. Protein Peptide Lett. 16 (2009) 552-560
-
(2009)
Protein Peptide Lett.
, vol.16
, pp. 552-560
-
-
Ding, Y.S.1
Zhang, T.L.2
Gu, Q.3
Zhao, P.Y.4
Chou, K.C.5
-
21
-
-
0041743078
-
Distinguishing enzyme structures from non-enzymes without alignments
-
Dobson P.D., and Doig A.J. Distinguishing enzyme structures from non-enzymes without alignments. J. Mol. Biol. 330 (2003) 771-783
-
(2003)
J. Mol. Biol.
, vol.330
, pp. 771-783
-
-
Dobson, P.D.1
Doig, A.J.2
-
22
-
-
9644283060
-
Predicting enzyme class from protein structure without alignments
-
Dobson P.D., and Doig A.J. Predicting enzyme class from protein structure without alignments. J. Mol. Biol. 345 (2005) 187-199
-
(2005)
J. Mol. Biol.
, vol.345
, pp. 187-199
-
-
Dobson, P.D.1
Doig, A.J.2
-
23
-
-
46849108913
-
Prediction of C-to-U RNA editing sites in plant mitochondria using both biochemical and evolutionary information
-
Du P., and Li Y. Prediction of C-to-U RNA editing sites in plant mitochondria using both biochemical and evolutionary information. J. Theor. Biol. 253 (2008) 579-589
-
(2008)
J. Theor. Biol.
, vol.253
, pp. 579-589
-
-
Du, P.1
Li, Y.2
-
24
-
-
16244414853
-
Heuristic molecular lipophilicity potential (HMLP): a 2D-QSAR study to LADH of molecular family pyrazole and derivatives
-
Du Q.S., Mezey P.G., and Chou K.C. Heuristic molecular lipophilicity potential (HMLP): a 2D-QSAR study to LADH of molecular family pyrazole and derivatives. J. Comput. Chem. 26 (2005) 461-470
-
(2005)
J. Comput. Chem.
, vol.26
, pp. 461-470
-
-
Du, Q.S.1
Mezey, P.G.2
Chou, K.C.3
-
25
-
-
37649025129
-
Multiple field three dimensional quantitative structure-activity relationship (MF-3D-QSAR)
-
Du Q.S., Huang R.B., Wei Y.T., Du L.Q., and Chou K.C. Multiple field three dimensional quantitative structure-activity relationship (MF-3D-QSAR). J. Comput. Chem. 29 (2008) 211-219
-
(2008)
J. Comput. Chem.
, vol.29
, pp. 211-219
-
-
Du, Q.S.1
Huang, R.B.2
Wei, Y.T.3
Du, L.Q.4
Chou, K.C.5
-
26
-
-
47349088078
-
Review: recent advances in QSAR and their applications in predicting the activities of chemical molecules, peptides and proteins for drug design
-
Du Q.S., Huang R.B., and Chou K.C. Review: recent advances in QSAR and their applications in predicting the activities of chemical molecules, peptides and proteins for drug design. Curr. Protein Pept. Sci. 9 (2008) 248-259
-
(2008)
Curr. Protein Pept. Sci.
, vol.9
, pp. 248-259
-
-
Du, Q.S.1
Huang, R.B.2
Chou, K.C.3
-
27
-
-
58249089596
-
Fragment-based quantitative structure-activity relationship (FB-QSAR) for fragment-based drug design
-
Du Q.S., Huang R.B., Wei Y.T., Pang Z.W., Du L.Q., and Chou K.C. Fragment-based quantitative structure-activity relationship (FB-QSAR) for fragment-based drug design. J. Comput. Chem. 30 (2009) 295-304
-
(2009)
J. Comput. Chem.
, vol.30
, pp. 295-304
-
-
Du, Q.S.1
Huang, R.B.2
Wei, Y.T.3
Pang, Z.W.4
Du, L.Q.5
Chou, K.C.6
-
28
-
-
0030876345
-
Visual BLAST and visual FASTA: graphic workbenches for interactive analysis of full BLAST and FASTA outputs under MICROSOFT WINDOWS 95/NT
-
Durand P., Canard L., and Mornon J.P. Visual BLAST and visual FASTA: graphic workbenches for interactive analysis of full BLAST and FASTA outputs under MICROSOFT WINDOWS 95/NT. Comput. Appl. Biosci. 13 (1997) 407-413
-
(1997)
Comput. Appl. Biosci.
, vol.13
, pp. 407-413
-
-
Durand, P.1
Canard, L.2
Mornon, J.P.3
-
29
-
-
30744442311
-
Effect of protein backbone folding on the stability of protein-ligand complexes
-
Estrada E., Uriarte E., and Vilar S. Effect of protein backbone folding on the stability of protein-ligand complexes. J. Proteome Res. 5 (2006) 105-111
-
(2006)
J. Proteome Res.
, vol.5
, pp. 105-111
-
-
Estrada, E.1
Uriarte, E.2
Vilar, S.3
-
30
-
-
0036708531
-
In silico studies toward the discovery of new anti-HIV nucleoside compounds with the use of TOPS-MODE and 2D/3D connectivity indices. 1. Pyrimidyl derivatives
-
Estrada E., Vilar S., Uriarte E., and Gutierrez Y. In silico studies toward the discovery of new anti-HIV nucleoside compounds with the use of TOPS-MODE and 2D/3D connectivity indices. 1. Pyrimidyl derivatives. J. Chem. Inf. Comput. Sci. 42 (2002) 1194-1203
-
(2002)
J. Chem. Inf. Comput. Sci.
, vol.42
, pp. 1194-1203
-
-
Estrada, E.1
Vilar, S.2
Uriarte, E.3
Gutierrez, Y.4
-
31
-
-
35449002457
-
Protein radial distribution function (P-RDF) and Bayesian-regularized genetic neural networks for modeling protein conformational stability: chymotrypsin inhibitor 2 mutants
-
Fernandez M., Caballero J., Fernandez L., Abreu J.I., and Garriga M. Protein radial distribution function (P-RDF) and Bayesian-regularized genetic neural networks for modeling protein conformational stability: chymotrypsin inhibitor 2 mutants. J. Mol. Graph Model. 26 (2007) 748-759
-
(2007)
J. Mol. Graph Model.
, vol.26
, pp. 748-759
-
-
Fernandez, M.1
Caballero, J.2
Fernandez, L.3
Abreu, J.I.4
Garriga, M.5
-
32
-
-
37349058879
-
Classification of conformational stability of protein mutants from 3D pseudo-folding graph representation of protein sequences using support vector machines
-
Fernandez M., Caballero J., Fernandez L., Abreu J.I., and Acosta G. Classification of conformational stability of protein mutants from 3D pseudo-folding graph representation of protein sequences using support vector machines. Proteins 70 (2007) 167-175
-
(2007)
Proteins
, vol.70
, pp. 167-175
-
-
Fernandez, M.1
Caballero, J.2
Fernandez, L.3
Abreu, J.I.4
Acosta, G.5
-
33
-
-
0022592245
-
A simple way to look at DNA
-
Gates M.A. A simple way to look at DNA. J. Theor. Biol. 119 (1986) 319-328
-
(1986)
J. Theor. Biol.
, vol.119
, pp. 319-328
-
-
Gates, M.A.1
-
34
-
-
59649123088
-
Use of fuzzy clustering technique and matrices to classify amino acids and its impact to Chou's pseudo amino acid composition
-
Georgiou D.N., Karakasidis T.E., Nieto J.J., and Torres A. Use of fuzzy clustering technique and matrices to classify amino acids and its impact to Chou's pseudo amino acid composition. J. Theor. Biol. 257 (2009) 17-26
-
(2009)
J. Theor. Biol.
, vol.257
, pp. 17-26
-
-
Georgiou, D.N.1
Karakasidis, T.E.2
Nieto, J.J.3
Torres, A.4
-
35
-
-
18344402537
-
Markovian negentropies in bioinformatics. 1. A picture of footprints after the interaction of the HIV-1 Psi-RNA packaging region with drugs
-
González-Díaz H., de Armas R.R., and Molina R. Markovian negentropies in bioinformatics. 1. A picture of footprints after the interaction of the HIV-1 Psi-RNA packaging region with drugs. Bioinformatics 19 (2003) 2079-2087
-
(2003)
Bioinformatics
, vol.19
, pp. 2079-2087
-
-
González-Díaz, H.1
de Armas, R.R.2
Molina, R.3
-
36
-
-
70350151491
-
-
González-Díaz, H, Molina-Ruiz, R, Hernandez, I, 2005a. MARCH-INSIDE version 2.0 Markovian chemicals in silico design, Main author information requesting contact email: gonzalezdiazh@yahoo.es
-
González-Díaz, H., Molina-Ruiz, R., Hernandez, I., 2005a. MARCH-INSIDE version 2.0 (Markovian chemicals in silico design). Main author information requesting contact email: gonzalezdiazh@yahoo.es.
-
-
-
-
37
-
-
23644443075
-
Recognition of stable protein mutants with 3D stochastic average electrostatic potentials
-
Gonzalez-Diaz H., Molina R., and Uriarte E. Recognition of stable protein mutants with 3D stochastic average electrostatic potentials. FEBS Lett. 579 (2005) 4297-4301
-
(2005)
FEBS Lett.
, vol.579
, pp. 4297-4301
-
-
Gonzalez-Diaz, H.1
Molina, R.2
Uriarte, E.3
-
38
-
-
25844519060
-
Proteins QSAR with Markov average electrostatic potentials
-
González-Díaz H., and Uriarte E. Proteins QSAR with Markov average electrostatic potentials. Bioorg. Med. Chem. Lett. 15 (2005) 5088-5094
-
(2005)
Bioorg. Med. Chem. Lett.
, vol.15
, pp. 5088-5094
-
-
González-Díaz, H.1
Uriarte, E.2
-
39
-
-
33947725480
-
2D-RNA-coupling numbers: a new computational chemistry approach to link secondary structure topology with biological function
-
González-Díaz H., Agüero-Chapin G., Varona J., Molina R., Delogu G., Santana L., Uriarte E., and Gianni P. 2D-RNA-coupling numbers: a new computational chemistry approach to link secondary structure topology with biological function. J. Comput. Chem. 28 (2007) 1049-1056
-
(2007)
J. Comput. Chem.
, vol.28
, pp. 1049-1056
-
-
González-Díaz, H.1
Agüero-Chapin, G.2
Varona, J.3
Molina, R.4
Delogu, G.5
Santana, L.6
Uriarte, E.7
Gianni, P.8
-
40
-
-
33847675464
-
On the applicability of QSAR for recognition of miRNA bioorganic structures at early stages of organism and cell development: embryo and stem cells
-
Gonzalez-Diaz H., Vilar S., Santana L., Podda G., and Uriarte E. On the applicability of QSAR for recognition of miRNA bioorganic structures at early stages of organism and cell development: embryo and stem cells. Bioorg. Med. Chem. 15 (2007) 2544-2550
-
(2007)
Bioorg. Med. Chem.
, vol.15
, pp. 2544-2550
-
-
Gonzalez-Diaz, H.1
Vilar, S.2
Santana, L.3
Podda, G.4
Uriarte, E.5
-
41
-
-
34547347534
-
Computational chemistry comparison of stable/nonstable protein mutants classification models based on 3D and topological indices
-
González-Díaz H., Pérez-Castillo Y., Podda G., and Uriarte E. Computational chemistry comparison of stable/nonstable protein mutants classification models based on 3D and topological indices. J. Comput. Chem. 28 (2007) 1990-1995
-
(2007)
J. Comput. Chem.
, vol.28
, pp. 1990-1995
-
-
González-Díaz, H.1
Pérez-Castillo, Y.2
Podda, G.3
Uriarte, E.4
-
42
-
-
34447254270
-
Medicinal chemistry and bioinformatics-current trends in drugs discovery with networks topological indices
-
González-Díaz H., Vilar S., Santana L., and Uriarte E. Medicinal chemistry and bioinformatics-current trends in drugs discovery with networks topological indices. Curr. Top. Med. Chem. 7 (2007) 1025-1039
-
(2007)
Curr. Top. Med. Chem.
, vol.7
, pp. 1025-1039
-
-
González-Díaz, H.1
Vilar, S.2
Santana, L.3
Uriarte, E.4
-
43
-
-
33847420914
-
A model for the recognition of protein kinases based on the entropy of 3D van der Waals interactions
-
González-Díaz H., Saiz-Urra L., Molina R., Santana L., and Uriarte E. A model for the recognition of protein kinases based on the entropy of 3D van der Waals interactions. J. Proteome Res. 6 (2007) 904-908
-
(2007)
J. Proteome Res.
, vol.6
, pp. 904-908
-
-
González-Díaz, H.1
Saiz-Urra, L.2
Molina, R.3
Santana, L.4
Uriarte, E.5
-
44
-
-
40549136471
-
Proteomics, networks and connectivity indices
-
González-Díaz H., González-Díaz Y., Santana L., Martínez-Ubeira F., and Uriarte E. Proteomics, networks and connectivity indices. Proteomics 8 (2008) 750-778
-
(2008)
Proteomics
, vol.8
, pp. 750-778
-
-
González-Díaz, H.1
González-Díaz, Y.2
Santana, L.3
Martínez-Ubeira, F.4
Uriarte, E.5
-
45
-
-
0345548608
-
Modeling drug albumin binding affinity with e-state topological structure representation
-
Hall L.M., Hall L.H., and Kier L.B. Modeling drug albumin binding affinity with e-state topological structure representation. J. Chem. Inf. Comput. Sci. 43 (2003) 2120-2128
-
(2003)
J. Chem. Inf. Comput. Sci.
, vol.43
, pp. 2120-2128
-
-
Hall, L.M.1
Hall, L.H.2
Kier, L.B.3
-
46
-
-
0024443297
-
Receiver operating characteristic (ROC) methodology: the state of the art
-
Hanley J.A. Receiver operating characteristic (ROC) methodology: the state of the art. Crit. Rev. Diagn. Imaging 29 (1989) 307-335
-
(1989)
Crit. Rev. Diagn. Imaging
, vol.29
, pp. 307-335
-
-
Hanley, J.A.1
-
47
-
-
0029938264
-
Prediction of the secondary structure of HIV-1 gp120
-
Hansen J.E., Lund O., Nielsen J.O., Brunak S., and Hansen J.E. Prediction of the secondary structure of HIV-1 gp120. Proteins 25 (1996) 1-11
-
(1996)
Proteins
, vol.25
, pp. 1-11
-
-
Hansen, J.E.1
Lund, O.2
Nielsen, J.O.3
Brunak, S.4
Hansen, J.E.5
-
49
-
-
0036301332
-
Secondary structure prediction for aligned RNA sequences
-
Hofacker I.L., Fekete M., and Stadler P.F. Secondary structure prediction for aligned RNA sequences. J. Mol. Biol. 319 (2002) 1059-1066
-
(2002)
J. Mol. Biol.
, vol.319
, pp. 1059-1066
-
-
Hofacker, I.L.1
Fekete, M.2
Stadler, P.F.3
-
50
-
-
14544279925
-
Protein folding on the hexagonal lattice in the HP model
-
Jiang M., and Zhu B. Protein folding on the hexagonal lattice in the HP model. J Bioinform. Comput. Biol. 3 (2005) 19-34
-
(2005)
J Bioinform. Comput. Biol.
, vol.3
, pp. 19-34
-
-
Jiang, M.1
Zhu, B.2
-
51
-
-
54249116426
-
Function prediction of hypothetical proteins without sequence similarity to proteins of known function
-
Kannan S., Hauth A.M., and Burger G. Function prediction of hypothetical proteins without sequence similarity to proteins of known function. Protein Peptide Lett. 15 (2008) 1107-1116
-
(2008)
Protein Peptide Lett.
, vol.15
, pp. 1107-1116
-
-
Kannan, S.1
Hauth, A.M.2
Burger, G.3
-
52
-
-
0035972742
-
Multiple alignment of complete sequences (MACS) in the post-genomic era
-
Lecompte O., Thompson J.D., Plewniak F., Thierry J., and Poch O. Multiple alignment of complete sequences (MACS) in the post-genomic era. Gene 270 (2001) 17-30
-
(2001)
Gene
, vol.270
, pp. 17-30
-
-
Lecompte, O.1
Thompson, J.D.2
Plewniak, F.3
Thierry, J.4
Poch, O.5
-
53
-
-
0028889673
-
Random walk and gap plots of DNA sequences
-
Leong P.M., and Morgenthaler S. Random walk and gap plots of DNA sequences. Comput. Appl. Biosci. 11 (1995) 503-507
-
(1995)
Comput. Appl. Biosci.
, vol.11
, pp. 503-507
-
-
Leong, P.M.1
Morgenthaler, S.2
-
54
-
-
47249153247
-
Predicting protein subcellular location using Chou's pseudo amino acid composition and improved hybrid approach
-
Li F.M., and Li Q.Z. Predicting protein subcellular location using Chou's pseudo amino acid composition and improved hybrid approach. Protein Peptide Lett. 15 (2008) 612-616
-
(2008)
Protein Peptide Lett.
, vol.15
, pp. 612-616
-
-
Li, F.M.1
Li, Q.Z.2
-
55
-
-
0037110580
-
Designability of protein structures: a lattice-model study using the Miyazawa-Jernigan matrix
-
Li H., Tang C., and Wingreen N.S. Designability of protein structures: a lattice-model study using the Miyazawa-Jernigan matrix. Proteins 49 (2002) 403-412
-
(2002)
Proteins
, vol.49
, pp. 403-412
-
-
Li, H.1
Tang, C.2
Wingreen, N.S.3
-
56
-
-
42749090472
-
The modified Mahalanobis discriminant for predicting outer membrane proteins by using Chou's pseudo amino acid composition
-
Lin H. The modified Mahalanobis discriminant for predicting outer membrane proteins by using Chou's pseudo amino acid composition. J. Theor. Biol. 252 (2008) 350-356
-
(2008)
J. Theor. Biol.
, vol.252
, pp. 350-356
-
-
Lin, H.1
-
57
-
-
49449087313
-
Predicting subcellular localization of mycobacterial proteins by using Chou's pseudo amino acid composition
-
Lin H., Ding H., Feng-Biao Guo F.B., Zhang A.Y., and Huang J. Predicting subcellular localization of mycobacterial proteins by using Chou's pseudo amino acid composition. Protein Peptide Lett. 15 (2008) 739-744
-
(2008)
Protein Peptide Lett.
, vol.15
, pp. 739-744
-
-
Lin, H.1
Ding, H.2
Feng-Biao Guo, F.B.3
Zhang, A.Y.4
Huang, J.5
-
58
-
-
67649361714
-
Estimation of affinity of HLA-A*0201 restricted CTL epitope based on the SCORE function.
-
Lin Z.H., Wang H.L., Zhu B., Wang Y.Q., Lin Y., and Wu Y.Z. Estimation of affinity of HLA-A*0201 restricted CTL epitope based on the SCORE function. Protein Peptide Lett. 16 (2009) 561-569
-
(2009)
Protein Peptide Lett.
, vol.16
, pp. 561-569
-
-
Lin, Z.H.1
Wang, H.L.2
Zhu, B.3
Wang, Y.Q.4
Lin, Y.5
Wu, Y.Z.6
-
59
-
-
34447498873
-
Smoking and colorectal cancer: different effects by type of cigarettes?
-
Luchtenborg M., White K.K., Wilkens L., Kolonel L.N., and Le Marchand L. Smoking and colorectal cancer: different effects by type of cigarettes?. Cancer Epidemiol. Biomarkers Prev. 16 (2007) 1341-1347
-
(2007)
Cancer Epidemiol. Biomarkers Prev.
, vol.16
, pp. 1341-1347
-
-
Luchtenborg, M.1
White, K.K.2
Wilkens, L.3
Kolonel, L.N.4
Le Marchand, L.5
-
60
-
-
34247135358
-
Hereditary cancer syndrome diagnosis: molecular genetic clues and cancer control
-
Lynch H.T., Fusaro R.M., and Lynch J.F. Hereditary cancer syndrome diagnosis: molecular genetic clues and cancer control. Future Oncol. 3 (2007) 169-181
-
(2007)
Future Oncol.
, vol.3
, pp. 169-181
-
-
Lynch, H.T.1
Fusaro, R.M.2
Lynch, J.F.3
-
61
-
-
0026659872
-
Statistical analysis with receiver operating characteristic curves
-
Mann F.A., Hildebolt C.F., and Wilson A.J. Statistical analysis with receiver operating characteristic curves. Radiology 184 (1992) 37-38
-
(1992)
Radiology
, vol.184
, pp. 37-38
-
-
Mann, F.A.1
Hildebolt, C.F.2
Wilson, A.J.3
-
62
-
-
29844457856
-
Outlier recognition in crystal-structure least-squares modelling by diagnostic techniques based on leverage analysis
-
Merli M. Outlier recognition in crystal-structure least-squares modelling by diagnostic techniques based on leverage analysis. Acta Crystallogr. A 61 (2005) 471-477
-
(2005)
Acta Crystallogr. A
, vol.61
, pp. 471-477
-
-
Merli, M.1
-
63
-
-
0015867021
-
Evaluation of receiver operating characteristic curve data in terms of information theory, with applications in radiography
-
Metz C.E., Goodenough D.J., and Rossmann K. Evaluation of receiver operating characteristic curve data in terms of information theory, with applications in radiography. Radiology 109 (1973) 297-303
-
(1973)
Radiology
, vol.109
, pp. 297-303
-
-
Metz, C.E.1
Goodenough, D.J.2
Rossmann, K.3
-
64
-
-
1842689866
-
Designing antibacterial compounds through a topological substructural approach
-
Molina E., González-Díaz H., Gonzalez M.P., Rodriguez E., and Uriarte E. Designing antibacterial compounds through a topological substructural approach. J. Chem. Inf. Comput. Sci. 44 (2004) 515-521
-
(2004)
J. Chem. Inf. Comput. Sci.
, vol.44
, pp. 515-521
-
-
Molina, E.1
González-Díaz, H.2
Gonzalez, M.P.3
Rodriguez, E.4
Uriarte, E.5
-
65
-
-
50149119645
-
Enzymes/non-enzymes classification model complexity based on composition, sequence, 3D and topological indices
-
Munteanu C.B., Gonzalez-Diaz H., and Magalhaes A.L. Enzymes/non-enzymes classification model complexity based on composition, sequence, 3D and topological indices. J. Theor. Biol. 254 (2008) 476-482
-
(2008)
J. Theor. Biol.
, vol.254
, pp. 476-482
-
-
Munteanu, C.B.1
Gonzalez-Diaz, H.2
Magalhaes, A.L.3
-
66
-
-
0000347441
-
A new graphical representation and analysis of DNA sequence structure: I. Methodology and application to globin genes
-
Nandy A. A new graphical representation and analysis of DNA sequence structure: I. Methodology and application to globin genes. Curr. Sci. 66 (1994) 309-314
-
(1994)
Curr. Sci.
, vol.66
, pp. 309-314
-
-
Nandy, A.1
-
67
-
-
63449123534
-
A further step toward an optimal ensemble of classifiers for peptide classification, a case study: HIV protease
-
Nanni L., and Lumini A. A further step toward an optimal ensemble of classifiers for peptide classification, a case study: HIV protease. Protein Peptide Lett. 16 (2009) 163-167
-
(2009)
Protein Peptide Lett.
, vol.16
, pp. 163-167
-
-
Nanni, L.1
Lumini, A.2
-
69
-
-
58149187912
-
Alignment-free prediction of mycobacterial DNA promoters based on pseudo-folding lattice network or star-graph topological indices
-
Perez-Bello A., Munteanu C.R., Ubeira F.M., Lopes De Magalhaes A., Uriarte E., and González-Díaz H. Alignment-free prediction of mycobacterial DNA promoters based on pseudo-folding lattice network or star-graph topological indices. J. Theor. Biol. 256 (2009) 458-466
-
(2009)
J. Theor. Biol.
, vol.256
, pp. 458-466
-
-
Perez-Bello, A.1
Munteanu, C.R.2
Ubeira, F.M.3
Lopes De Magalhaes, A.4
Uriarte, E.5
González-Díaz, H.6
-
70
-
-
0033651646
-
Bioinformatics in protein analysis
-
Persson B. Bioinformatics in protein analysis. Exs 88 (2000) 215-231
-
(2000)
Exs
, vol.88
, pp. 215-231
-
-
Persson, B.1
-
71
-
-
33845316136
-
Unified QSAR approach to antimicrobials. Part 2: predicting activity against more than 90 different species in order to halt antibacterial resistance
-
Prado-Prado F., González-Díaz H., Santana L., and Uriarte E. Unified QSAR approach to antimicrobials. Part 2: predicting activity against more than 90 different species in order to halt antibacterial resistance. Bioorg. Med. Chem. 15 (2007) 897-902
-
(2007)
Bioorg. Med. Chem.
, vol.15
, pp. 897-902
-
-
Prado-Prado, F.1
González-Díaz, H.2
Santana, L.3
Uriarte, E.4
-
72
-
-
4043133700
-
Markovian backbone negentropies: molecular descriptors for protein research. I. Predicting protein stability in Arc repressor mutants
-
Ramos de Armas R., González-Díaz H., Molina R., and Uriarte E. Markovian backbone negentropies: molecular descriptors for protein research. I. Predicting protein stability in Arc repressor mutants. Proteins 56 (2004) 715-723
-
(2004)
Proteins
, vol.56
, pp. 715-723
-
-
Ramos de Armas, R.1
González-Díaz, H.2
Molina, R.3
Uriarte, E.4
-
73
-
-
0037435485
-
Novel 2-D graphical representation of DNA sequences and their numerical characterization
-
Randić M., Vračko M., Lerš N., and Plavšić D. Novel 2-D graphical representation of DNA sequences and their numerical characterization. Chem. Phys. Lett. 368 (2003) 1-6
-
(2003)
Chem. Phys. Lett.
, vol.368
, pp. 1-6
-
-
Randić, M.1
Vračko, M.2
Lerš, N.3
Plavšić, D.4
-
74
-
-
52349120954
-
Prediction of membrane protein types by means of wavelet analysis and cascaded neural networks
-
Rezaei M.A., Abdolmaleki P., Karami Z., Asadabadi E.B., Sherafat M.A., Abrishami-Moghaddam H., Fadaie M., and Forouzanfar M. Prediction of membrane protein types by means of wavelet analysis and cascaded neural networks. J. Theor. Biol. 254 (2008) 817-820
-
(2008)
J. Theor. Biol.
, vol.254
, pp. 817-820
-
-
Rezaei, M.A.1
Abdolmaleki, P.2
Karami, Z.3
Asadabadi, E.B.4
Sherafat, M.A.5
Abrishami-Moghaddam, H.6
Fadaie, M.7
Forouzanfar, M.8
-
75
-
-
18144386946
-
Proteins Markovian 3D-QSAR with spherically-truncated average electrostatic potentials
-
Saiz-Urra L., González-Díaz H., and Uriarte E. Proteins Markovian 3D-QSAR with spherically-truncated average electrostatic potentials. Bioorg. Med. Chem. 13 (2005) 3641-3647
-
(2005)
Bioorg. Med. Chem.
, vol.13
, pp. 3641-3647
-
-
Saiz-Urra, L.1
González-Díaz, H.2
Uriarte, E.3
-
76
-
-
32344446616
-
A QSAR model for in silico screening of MAO-A inhibitors. Prediction, synthesis, and biological assay of novel coumarins
-
Santana L., Uriarte E., González-Díaz H., Zagotto G., Soto-Otero R., and Mendez-Alvarez E. A QSAR model for in silico screening of MAO-A inhibitors. Prediction, synthesis, and biological assay of novel coumarins. J. Med. Chem. 49 (2006) 1149-1156
-
(2006)
J. Med. Chem.
, vol.49
, pp. 1149-1156
-
-
Santana, L.1
Uriarte, E.2
González-Díaz, H.3
Zagotto, G.4
Soto-Otero, R.5
Mendez-Alvarez, E.6
-
77
-
-
34250876250
-
Genetic investigation of DNA-repair pathway genes PMS2, MLH1, MSH2, MSH6, MUTYH, OGG1 and MTH1 in sporadic colon cancer
-
Schafmayer C., Buch S., Egberts J.H., Franke A., Brosch M., El Sharawy A., Conring M., Koschnick M., Schwiedernoch S., Katalinic A., Kremer B., Folsch U.R., Krawczak M., Fandrich F., Schreiber S., Tepel J., and Hampe J. Genetic investigation of DNA-repair pathway genes PMS2, MLH1, MSH2, MSH6, MUTYH, OGG1 and MTH1 in sporadic colon cancer. Int. J. Cancer 121 (2007) 555-558
-
(2007)
Int. J. Cancer
, vol.121
, pp. 555-558
-
-
Schafmayer, C.1
Buch, S.2
Egberts, J.H.3
Franke, A.4
Brosch, M.5
El Sharawy, A.6
Conring, M.7
Koschnick, M.8
Schwiedernoch, S.9
Katalinic, A.10
Kremer, B.11
Folsch, U.R.12
Krawczak, M.13
Fandrich, F.14
Schreiber, S.15
Tepel, J.16
Hampe, J.17
-
78
-
-
65249148484
-
QuatIdent: a web server for identifying protein quaternary structural attribute by fusing functional domain and sequential evolution information
-
Shen H.B., and Chou K.C. QuatIdent: a web server for identifying protein quaternary structural attribute by fusing functional domain and sequential evolution information. J. Proteome Res. 8 (2009) 1577-1584
-
(2009)
J. Proteome Res.
, vol.8
, pp. 1577-1584
-
-
Shen, H.B.1
Chou, K.C.2
-
79
-
-
69949110263
-
Prediction of protein folding rates from primary sequence by fusing multiple sequential features
-
(open accessible at 〈http://www.srpublishing.org/journal/jbise/〉)
-
Shen H.B., Song J.N., and Chou K.C. Prediction of protein folding rates from primary sequence by fusing multiple sequential features. J. Biomed. Sci. Eng. 2 (2009) 136-143. http://www.srpublishing.org/journal/jbise/ (open accessible at 〈http://www.srpublishing.org/journal/jbise/〉)
-
(2009)
J. Biomed. Sci. Eng.
, vol.2
, pp. 136-143
-
-
Shen, H.B.1
Song, J.N.2
Chou, K.C.3
-
80
-
-
49449090485
-
A protein interaction network analysis for yeast integral membrane protein
-
Shi M.G., Huang D.S., and Li X.L. A protein interaction network analysis for yeast integral membrane protein. Protein Peptide Lett. 15 (2008) 692-699
-
(2008)
Protein Peptide Lett.
, vol.15
, pp. 692-699
-
-
Shi, M.G.1
Huang, D.S.2
Li, X.L.3
-
81
-
-
33749993417
-
The consensus coding sequences of human breast and colorectal cancers
-
Sjöblom T., Jones S., Wood L.D., Parsons D.W., Lin J., Barber T.D., Mandelker D., Leary R.J., Ptak J., Silliman N., Szabo S., Buckhaults P., Farrell C., Meeh P., Markowitz S.D., Willis J., Dawson D., Willson J.K., Gazdar A.F., Hartigan J., Wu L., Liu C., Parmigiani G., Park B.H., Bachman K.E., Papadopoulos N., Vogelstein B., Kinzler K.W., and Velculescu V.E. The consensus coding sequences of human breast and colorectal cancers. Science 314 (2006) 268-274
-
(2006)
Science
, vol.314
, pp. 268-274
-
-
Sjöblom, T.1
Jones, S.2
Wood, L.D.3
Parsons, D.W.4
Lin, J.5
Barber, T.D.6
Mandelker, D.7
Leary, R.J.8
Ptak, J.9
Silliman, N.10
Szabo, S.11
Buckhaults, P.12
Farrell, C.13
Meeh, P.14
Markowitz, S.D.15
Willis, J.16
Dawson, D.17
Willson, J.K.18
Gazdar, A.F.19
Hartigan, J.20
Wu, L.21
Liu, C.22
Parmigiani, G.23
Park, B.H.24
Bachman, K.E.25
Papadopoulos, N.26
Vogelstein, B.27
Kinzler, K.W.28
Velculescu, V.E.29
more..
-
82
-
-
0035748356
-
Protein structure prediction using a combination of sequence-based alignment, constrained energy minimization, and structural alignment
-
Standley, D.M., Eyrich, V.A., An, Y., Pincus, D.L., Gunn, J.R., Friesner, R.A., 2001. Protein structure prediction using a combination of sequence-based alignment, constrained energy minimization, and structural alignment. Proteins (Suppl. 5), 133-139.
-
(2001)
Proteins
, Issue.SUPPL. 5
, pp. 133-139
-
-
Standley, D.M.1
Eyrich, V.A.2
An, Y.3
Pincus, D.L.4
Gunn, J.R.5
Friesner, R.A.6
-
83
-
-
70350170337
-
-
StatSoft.Inc, STATISTICA data analysis software system, version 6.0, Inc, Tulsa, OK, USA, 2002
-
StatSoft.Inc., STATISTICA (data analysis software system), version 6.0, 〈www.statsoft.com.Statsoft〉, Inc., Tulsa, OK, USA, 2002.
-
-
-
-
84
-
-
34547141354
-
Clinical, biological, and molecular aspects of metastasis in colorectal cancer
-
Stein U., and Schlag P.M. Clinical, biological, and molecular aspects of metastasis in colorectal cancer. Recent Results Cancer Res. 176 (2007) 61-80
-
(2007)
Recent Results Cancer Res.
, vol.176
, pp. 61-80
-
-
Stein, U.1
Schlag, P.M.2
-
85
-
-
54249165105
-
Toward prediction of binding affinities between the MHC protein and its peptide ligands using quantitative structure-activity relationship approach
-
Tian F., Lv F., Zhou P., Yang Q., and Jalbout A.F. Toward prediction of binding affinities between the MHC protein and its peptide ligands using quantitative structure-activity relationship approach. Protein Peptide Lett. 15 (2008) 1033-1043
-
(2008)
Protein Peptide Lett.
, vol.15
, pp. 1033-1043
-
-
Tian, F.1
Lv, F.2
Zhou, P.3
Yang, Q.4
Jalbout, A.F.5
-
86
-
-
32344439358
-
Probabilistic neural network model for the in silico evaluation of anti-HIV activity and mechanism of action
-
Vilar S., Santana L., and Uriarte E. Probabilistic neural network model for the in silico evaluation of anti-HIV activity and mechanism of action. J. Med. Chem. 49 (2006) 1118-1124
-
(2006)
J. Med. Chem.
, vol.49
, pp. 1118-1124
-
-
Vilar, S.1
Santana, L.2
Uriarte, E.3
-
88
-
-
62649087986
-
Predicting protein quaternary structural attribute by hybridizing functional domain composition and pseudo amino acid composition
-
Xiao X., Wang P., and Chou K.C. Predicting protein quaternary structural attribute by hybridizing functional domain composition and pseudo amino acid composition. J. Appl. Crystallogr. 42 (2009) 169-173
-
(2009)
J. Appl. Crystallogr.
, vol.42
, pp. 169-173
-
-
Xiao, X.1
Wang, P.2
Chou, K.C.3
-
89
-
-
64749096548
-
GPCR-CA: a cellular automaton image approach for predicting G-protein-coupled receptor functional classes
-
Xiao X., Wang P., and Chou K.C. GPCR-CA: a cellular automaton image approach for predicting G-protein-coupled receptor functional classes. J. Comput. Chem. 30 (2009) 1414-1423
-
(2009)
J. Comput. Chem.
, vol.30
, pp. 1414-1423
-
-
Xiao, X.1
Wang, P.2
Chou, K.C.3
-
90
-
-
34547975004
-
Diet and genomic stability
-
Young G.P. Diet and genomic stability. Forum Nutr. 60 (2007) 91-96
-
(2007)
Forum Nutr.
, vol.60
, pp. 91-96
-
-
Young, G.P.1
-
91
-
-
67349244013
-
Using the augmented Chou's pseudo amino acid composition for predicting protein submitochondria locations based on auto covariance approach
-
Zeng Y.H., Guo Y.Z., Xiao R.Q., Yang L., Yu L.Z., and Li M.L. Using the augmented Chou's pseudo amino acid composition for predicting protein submitochondria locations based on auto covariance approach. J. Theor. Biol. 259 (2009) 366-372
-
(2009)
J. Theor. Biol.
, vol.259
, pp. 366-372
-
-
Zeng, Y.H.1
Guo, Y.Z.2
Xiao, R.Q.3
Yang, L.4
Yu, L.Z.5
Li, M.L.6
-
92
-
-
45649083292
-
Predicting the cofactors of oxidoreductases based on amino acid composition distribution and Chou's amphiphilic pseudo amino acid composition
-
Zhang G.Y., and Fang B.S. Predicting the cofactors of oxidoreductases based on amino acid composition distribution and Chou's amphiphilic pseudo amino acid composition. J. Theor. Biol. 253 (2008) 310-315
-
(2008)
J. Theor. Biol.
, vol.253
, pp. 310-315
-
-
Zhang, G.Y.1
Fang, B.S.2
-
93
-
-
54249139729
-
Predicting lipase types by improved Chou's pseudo-amino acid composition
-
Zhang G.Y., Li H.C., and Fang B.S. Predicting lipase types by improved Chou's pseudo-amino acid composition. Protein Peptide Lett. 15 (2008) 1132-1137
-
(2008)
Protein Peptide Lett.
, vol.15
, pp. 1132-1137
-
-
Zhang, G.Y.1
Li, H.C.2
Fang, B.S.3
-
94
-
-
15444360683
-
PowerBLAST: a new network BLAST application for interactive or automated sequence analysis and annotation
-
Zhang J., and Madden T.L. PowerBLAST: a new network BLAST application for interactive or automated sequence analysis and annotation. Genome Res. 7 (1997) 649-656
-
(1997)
Genome Res.
, vol.7
, pp. 649-656
-
-
Zhang, J.1
Madden, T.L.2
|