-
1
-
-
1542400269
-
Analysis and prediction of DNA-binding proteins and their binding residues based on composition, sequence and structural information
-
Ahmad,S. et al. (2004) Analysis and prediction of DNA-binding proteins and their binding residues based on composition, sequence and structural information. Bioinformatics, 20, 477-486.
-
(2004)
Bioinformatics
, vol.20
, pp. 477-486
-
-
Ahmad, S.1
-
2
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
-
Altschul,S. et al. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res., 25, 3389-3402.
-
(1997)
Nucleic Acids Res
, vol.25
, pp. 3389-3402
-
-
Altschul, S.1
-
3
-
-
34047232678
-
Positive and negative design in stability and thermal adaptation of natural proteins
-
Berezovsky,I.N. et al. (2007) Positive and negative design in stability and thermal adaptation of natural proteins. PLoS Comput. Biol., 3, 498-507.
-
(2007)
PLoS Comput. Biol.
, vol.3
, pp. 498-507
-
-
Berezovsky, I.N.1
-
4
-
-
33847122913
-
Residue-level prediction of DNA-binding sites and its application on DNA-binding protein predictions
-
Bhardwaj,N. and Lu,H. (2007) Residue-level prediction of DNA-binding sites and its application on DNA-binding protein predictions. FEBS Lett., 581, 1058-1066.
-
(2007)
FEBS Lett.
, vol.581
, pp. 1058-1066
-
-
Bhardwaj, N.1
Lu, H.2
-
5
-
-
34047138318
-
Combining SVMs with various feature selection strategies
-
Guyon,I. et al. (eds) Springer, Heidelberg
-
Chen,Y.W. and Lin,C.J. (2006) Combining SVMs with various feature selection strategies. In Guyon,I. et al. (eds) Feature Extraction: Foundations and Applications, Springer, Heidelberg, pp. 315-324.
-
(2006)
Feature Extraction: Foundations and Applications
, pp. 315-324
-
-
Chen, Y.W.1
Lin, C.J.2
-
6
-
-
0032797505
-
A simple method for predicting transmembrane alpha helices with better accuracy
-
Gromiha,M.M. (1999) A simple method for predicting transmembrane alpha helices with better accuracy. Protein Eng., 12, 557-561.
-
(1999)
Protein Eng.
, vol.12
, pp. 557-561
-
-
Gromiha, M.M.1
-
7
-
-
39749148317
-
Discrimination of mesophilic and thermophilic proteins using machine learning algorithms
-
Gromiha,M.M. and Suresh,M.X. (2008) Discrimination of mesophilic and thermophilic proteins using machine learning algorithms. Proteins, 70, 1274-1279.
-
(2008)
Proteins
, vol.70
, pp. 1274-1279
-
-
Gromiha, M.M.1
Suresh, M.X.2
-
8
-
-
41049110433
-
Functional discrimination of membrane proteins using machine learning techniques
-
Gromiha,M.M. and Yabuki,Y. (2008) Functional discrimination of membrane proteins using machine learning techniques. BMC Bioinformatics, 9, 135.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 135
-
-
Gromiha, M.M.1
Yabuki, Y.2
-
9
-
-
16344383328
-
Application of residue distribution along the sequence for discriminating outer membrane proteins
-
Gromiha,M.M. et al. (2005) Application of residue distribution along the sequence for discriminating outer membrane proteins. Comput. Biol. Chem., 29, 135-142.
-
(2005)
Comput. Biol. Chem.
, vol.29
, pp. 135-142
-
-
Gromiha, M.M.1
-
10
-
-
58149177176
-
TMFunction: database for functional residues in membrane proteins
-
Gromiha,M.M. et al. (2009) TMFunction: database for functional residues in membrane proteins. Nucleic Acids Res., 37, D201-D204.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Gromiha, M.M.1
-
11
-
-
0031826040
-
SOSUI: classification and secondary structure prediction system for membrane proteins
-
Hirokawa,T. et al. (1998) SOSUI: classification and secondary structure prediction system for membrane proteins. Bioinformatics, 14, 378-379.
-
(1998)
Bioinformatics
, vol.14
, pp. 378-379
-
-
Hirokawa, T.1
-
12
-
-
26444619105
-
Discovering the interaction propensities of amino acids and nucleotides from protein-RNA complexes
-
Jeong,E. et al. (2003) Discovering the interaction propensities of amino acids and nucleotides from protein-RNA complexes. Mol. Cells, 16, 161-167.
-
(2003)
Mol. Cells
, vol.16
, pp. 161-167
-
-
Jeong, E.1
-
13
-
-
0033578684
-
Protein secondary structure prediction based on position-specific scoring matrices
-
Jones,D.T. (1999) Protein secondary structure prediction based on position-specific scoring matrices. J. Mol. Biol., 292, 195-202.
-
(1999)
J. Mol. Biol.
, vol.292
, pp. 195-202
-
-
Jones, D.T.1
-
14
-
-
0035865891
-
Protein-RNA interactions: a structural analysis
-
Jones,S. et al. (2001) Protein-RNA interactions: a structural analysis. Nucleic Acids Res., 29, 943-954.
-
(2001)
Nucleic Acids Res.
, vol.29
, pp. 943-954
-
-
Jones, S.1
-
15
-
-
38549155006
-
AAindex: amino acid index database, progress report 2008
-
Kawashima,S. et al. (2008) AAindex: amino acid index database, progress report 2008. Nucleic Acids Res., 36, D202.
-
(2008)
Nucleic Acids Res.
, vol.36
-
-
Kawashima, S.1
-
16
-
-
40549105098
-
Prediction of RNA binding sites in a protein using SVM and PSSM profile
-
Kumar,M. et al. (2008) Prediction of RNA binding sites in a protein using SVM and PSSM profile. Proteins, 71, 189-194.
-
(2008)
Proteins
, vol.71
, pp. 189-194
-
-
Kumar, M.1
-
17
-
-
42649092537
-
A nearest neighbor approach for automated transporter prediction and categorization from protein sequences
-
Li,H. et al. (2008) A nearest neighbor approach for automated transporter prediction and categorization from protein sequences. Bioinformatics, 24, 1129.
-
(2008)
Bioinformatics
, vol.24
, pp. 1129
-
-
Li, H.1
-
18
-
-
75149162948
-
TransportTP: A two-phase classification approach for membrane transporter prediction and characterization
-
Li,H. et al. (2009) TransportTP: A two-phase classification approach for membrane transporter prediction and characterization. BMC Bioinformatics, 10, 418.
-
(2009)
BMC Bioinformatics
, vol.10
, pp. 418
-
-
Li, H.1
-
20
-
-
33750098008
-
A novel radial basis function network classifier with centers set by hierarchical clustering
-
Ou,Y.-Y. et al. (2005) A novel radial basis function network classifier with centers set by hierarchical clustering. Proc. IJCNN'05, 3, 1383-1388.
-
(2005)
Proc. IJCNN'05
, vol.3
, pp. 1383-1388
-
-
Ou, Y.-Y.1
-
21
-
-
43249097732
-
TMBETADISC-RBF: discrimination of β-barrel membrane proteins using RBF networks and PSSM profiles
-
Ou,Y.-Y. et al. (2008)TMBETADISC-RBF: discrimination of β-barrel membrane proteins using RBF networks and PSSM profiles. Comput. Biol. Chem., 32, 227-231.
-
(2008)
Comput. Biol. Chem.
, vol.32
, pp. 227-231
-
-
Ou, Y.-Y.1
-
22
-
-
77951225212
-
Classification of transporters using efficient radial basis function networks with position-specific scoring matrices and biochemical properties
-
Ou,Y.-Y. et al. (2010) Classification of transporters using efficient radial basis function networks with position-specific scoring matrices and biochemical properties. Proteins, 78, 1789-1797.
-
(2010)
Proteins
, vol.78
, pp. 1789-1797
-
-
Ou, Y.-Y.1
-
23
-
-
33846040629
-
TransportDB: a comprehensive database resource for cytoplasmic membrane transport systems and outer membrane channels
-
Ren,Q. et al. (2007) TransportDB: a comprehensive database resource for cytoplasmic membrane transport systems and outer membrane channels. Nucleic Acids Res., 35, D274-D279.
-
(2007)
Nucleic Acids Res.
, vol.35
-
-
Ren, Q.1
-
24
-
-
0343603660
-
Afunctional-phylogenetic classification system for transmembrane solute transporters
-
Saier,M.H. Jr (2000)Afunctional-phylogenetic classification system for transmembrane solute transporters. Microbiol. Mol. Biol. Rev., 64, 354-411.
-
(2000)
Microbiol. Mol. Biol. Rev.
, vol.64
, pp. 354-411
-
-
Saier Jr., M.H.1
-
25
-
-
33644873454
-
TCDB: the Transporter Classification Database for membrane transport protein analyses and information
-
Saier,M.H. Jr et al. (2006) TCDB: the Transporter Classification Database for membrane transport protein analyses and information. Nucleic Acids Res., 34, D181-D186.
-
(2006)
Nucleic Acids Res.
, vol.34
-
-
Saier Jr., M.H.1
-
26
-
-
33746952996
-
Protein disorder prediction by condensed PSSM considering propensity for order or disorder
-
Su,C.-T. et al. (2006) Protein disorder prediction by condensed PSSM considering propensity for order or disorder. BMC Bioinformatics, 7, 319.
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 319
-
-
Su, C.-T.1
-
27
-
-
33746526551
-
Prediction of RNAbinding sites in proteins from amino acid sequence
-
Terribilini,M. et al. (2006) Prediction of RNAbinding sites in proteins from amino acid sequence. RNA, 12, 1450-1462.
-
(2006)
RNA
, vol.12
, pp. 1450-1462
-
-
Terribilini, M.1
-
28
-
-
75849153303
-
The universal protein resource (UniProt) in 2010
-
The UniProt Consortium
-
The UniProt Consortium (2010) The universal protein resource (UniProt) in 2010. Nucleic Acids Res., 38, D142-D148.
-
(2010)
Nucleic Acids Res.
, vol.38
-
-
-
29
-
-
0032561132
-
Principles governing amino acid composition of integral membrane proteins: application to topology prediction
-
Tusnady,G.E. and Simon,I. (1998) Principles governing amino acid composition of integral membrane proteins: application to topology prediction. J. Mol. Biol., 283, 489-506.
-
(1998)
J. Mol. Biol.
, vol.283
, pp. 489-506
-
-
Tusnady, G.E.1
Simon, I.2
-
30
-
-
58049220320
-
Prediction of DNA-binding residues in proteins from amino acid sequences using a random forest model with a hybrid feature
-
Wu, J.S. et al. (2009) Prediction of DNA-binding residues in proteins from amino acid sequences using a random forest model with a hybrid feature. Bioinformatics, 25, 30-35.
-
(2009)
Bioinformatics
, vol.25
, pp. 30-35
-
-
Wu, J.S.1
-
31
-
-
23144461988
-
LOCSVMPSI: a web server for subcellular localization of eukaryotic proteins using SVM and profile of PSI-BLAST
-
Xie,D. et al. (2005) LOCSVMPSI: a web server for subcellular localization of eukaryotic proteins using SVM and profile of PSI-BLAST. Nucleic Acids Res., 33, W105-W110.
-
(2005)
Nucleic Acids Res.
, vol.33
-
-
Xie, D.1
-
32
-
-
13844272392
-
Bio-basis function neural network for prediction of protease cleavage sites in proteins
-
Yang,Z.R. and Thomson,R. (2005) Bio-basis function neural network for prediction of protease cleavage sites in proteins. IEEE Trans. Neural Netw., 16, 263-274.
-
(2005)
IEEE Trans. Neural Netw.
, vol.16
, pp. 263-274
-
-
Yang, Z.R.1
Thomson, R.2
-
33
-
-
33646789420
-
Application of amino acid distribution along the sequence for discriminating mesophilic and thermophilic proteins
-
Zhang,G.Y. and Fang,B.S. (2006) Application of amino acid distribution along the sequence for discriminating mesophilic and thermophilic proteins. Process Biochem., 41, 1792-1798.
-
(2006)
Process Biochem.
, vol.41
, pp. 1792-1798
-
-
Zhang, G.Y.1
Fang, B.S.2
-
34
-
-
22144489879
-
Prediction of inter-residue contacts map based on genetic algorithm optimized radial basis function neural network and binary input encoding scheme
-
Zhang,G.Z. and Huang,D.S. (2004) Prediction of inter-residue contacts map based on genetic algorithm optimized radial basis function neural network and binary input encoding scheme. J. Comput. Aided Mol. Des., 18, 797-810.
-
(2004)
J. Comput. Aided Mol. Des.
, vol.18
, pp. 797-810
-
-
Zhang, G.Z.1
Huang, D.S.2
|