-
1
-
-
0014937223
-
Central dogma of molecular biology
-
Crick, F. (1970) Central dogma of molecular biology. Nature, 227, 561-563.
-
(1970)
Nature
, vol.227
, pp. 561-563
-
-
Crick, F.1
-
2
-
-
30744439294
-
A scientific revolution? The prion anomaly may challenge the central dogma of molecular biology
-
Bussard, A.E. (2005) A scientific revolution? The prion anomaly may challenge the central dogma of molecular biology. EMBO Rep., 6, 691-694.
-
(2005)
EMBO Rep.
, vol.6
, pp. 691-694
-
-
Bussard, A.E.1
-
3
-
-
67650750709
-
Systematic prediction of control proteins and their DNA binding sites
-
Sorokin, V., Severinov, K. and Gelfand, M.S. (2008) Systematic prediction of control proteins and their DNA binding sites. Nucleic Acids Res.
-
(2008)
Nucleic Acids Res.
-
-
Sorokin, V.1
Severinov, K.2
Gelfand, M.S.3
-
4
-
-
0034914973
-
Evidence for an important role of WRKY DNA binding proteins in the regulation of NPR1 gene expression
-
Yu, D., Chen, C. and Chen, Z. (2001) Evidence for an important role of WRKY DNA binding proteins in the regulation of NPR1 gene expression. Plant Cell, 13, 1527-1540.
-
(2001)
Plant Cell
, vol.13
, pp. 1527-1540
-
-
Yu, D.1
Chen, C.2
Chen, Z.3
-
5
-
-
0024965788
-
DNA-binding domain ancestry
-
Frampton, J., Leutz, A., Gibson, T. and Graf, T. (1989) DNA-binding domain ancestry. Nature, 342, 134.
-
(1989)
Nature
, vol.342
, pp. 134
-
-
Frampton, J.1
Leutz, A.2
Gibson, T.3
Graf, T.4
-
6
-
-
0032877827
-
Molecular evolution of helix-turn-helix proteins
-
Rosinski, J.A. and Atchley, W.R. (1999) Molecular evolution of helix-turn-helix proteins. J. Mol. Evol., 49, 301-309.
-
(1999)
J. Mol. Evol.
, vol.49
, pp. 301-309
-
-
Rosinski, J.A.1
Atchley, W.R.2
-
7
-
-
15944379232
-
The many faces of the helix-turn-helix domain: transcription regulation and beyond
-
Aravind, L., Anantharaman, V., Balaji, S., Babu, M.M. and Iyer, L.M. (2005) The many faces of the helix-turn-helix domain: transcription regulation and beyond. FEMS Microbiol. Rev., 29, 231-262.
-
(2005)
FEMS Microbiol. Rev.
, vol.29
, pp. 231-262
-
-
Aravind, L.1
Anantharaman, V.2
Balaji, S.3
Babu, M.M.4
Iyer, L.M.5
-
8
-
-
24644492834
-
HTHquery: a method for detecting DNA-binding proteins with a helix-turn-helix structural motif
-
Ferrer-Costa, C., Shanahan, H.P., Jones, S. and Thornton, J.M. (2005) HTHquery: a method for detecting DNA-binding proteins with a helix-turn-helix structural motif. Bioinformatics, 21, 3679-3680.
-
(2005)
Bioinformatics
, vol.21
, pp. 3679-3680
-
-
Ferrer-Costa, C.1
Shanahan, H.P.2
Jones, S.3
Thornton, J.M.4
-
9
-
-
4444343959
-
Identifying DNA-binding proteins using structural motifs and the electrostatic potential
-
Shanahan, H.P., Garcia, M.A., Jones, S. and Thornton, J.M. (2004) Identifying DNA-binding proteins using structural motifs and the electrostatic potential. Nucleic Acids Res., 32, 4732-4741.
-
(2004)
Nucleic Acids Res.
, vol.32
, pp. 4732-4741
-
-
Shanahan, H.P.1
Garcia, M.A.2
Jones, S.3
Thornton, J.M.4
-
10
-
-
0038681269
-
Statistical models for discerning protein structures containing the DNA-binding helix-turn-helix motif
-
McLaughlin, W.A. and Berman, H.M. (2003) Statistical models for discerning protein structures containing the DNA-binding helix-turn-helix motif. J. Mol. Biol., 330, 43-55.
-
(2003)
J. Mol. Biol.
, vol.330
, pp. 43-55
-
-
McLaughlin, W.A.1
Berman, H.M.2
-
11
-
-
1542400269
-
Analysis and prediction of DNA-binding proteins and their binding residues based on composition, sequence and structural information
-
Ahmad, S., Gromiha, M.M. and Sarai, A. (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
Gromiha, M.M.2
Sarai, A.3
-
12
-
-
17844369961
-
Detecting DNA-binding helix-turn-helix structural motifs using sequence and structure information
-
Pellegrini-Calace, M. and Thornton, J.M. (2005) Detecting DNA-binding helix-turn-helix structural motifs using sequence and structure information. Nucleic Acids Res., 33, 2129-2140.
-
(2005)
Nucleic Acids Res.
, vol.33
, pp. 2129-2140
-
-
Pellegrini-Calace, M.1
Thornton, J.M.2
-
13
-
-
34547555987
-
KinasePhos 2.0: a web server for identifying protein kinase-specific phosphorylation sites based on sequences and coupling patterns
-
Wong, Y.H., Lee, T.Y., Liang, H.K., Huang, C.M., Wang, T.Y., Yang, Y.H., Chu, C.H., Huang, H.D., Ko, M.T. and Hwang, J.K. (2007) KinasePhos 2.0: a web server for identifying protein kinase-specific phosphorylation sites based on sequences and coupling patterns. Nucleic Acids Res., 35, W588-W594.
-
(2007)
Nucleic Acids Res.
, vol.35
-
-
Wong, Y.H.1
Lee, T.Y.2
Liang, H.K.3
Huang, C.M.4
Wang, T.Y.5
Yang, Y.H.6
Chu, C.H.7
Huang, H.D.8
Ko, M.T.9
Hwang, J.K.10
-
14
-
-
33746634756
-
An approach of encoding for prediction of splice sites using SVM
-
Huang, J., Li, T., Chen, K. and Wu, J. (2006) An approach of encoding for prediction of splice sites using SVM. Biochimie, 88, 923-929.
-
(2006)
Biochimie
, vol.88
, pp. 923-929
-
-
Huang, J.1
Li, T.2
Chen, K.3
Wu, J.4
-
15
-
-
16344384583
-
Effect of training datasets on support vector machine prediction of protein-protein interactions
-
Lo, S.L., Cai, C.Z., Chen, Y.Z. and Chung, M.C. (2005) Effect of training datasets on support vector machine prediction of protein-protein interactions. Proteomics, 5, 876-884.
-
(2005)
Proteomics
, vol.5
, pp. 876-884
-
-
Lo, S.L.1
Cai, C.Z.2
Chen, Y.Z.3
Chung, M.C.4
-
16
-
-
33745184017
-
Gauss-function-Based model of hydrophobicity density in proteins
-
Konieczny, L., Brylinski, M. and Roterman, I. (2006) Gauss-function-Based model of hydrophobicity density in proteins. In Silico Biol., 6, 15-22.
-
(2006)
Silico Biol.
, vol.6
, pp. 15-22
-
-
Konieczny, L.1
Brylinski, M.2
Roterman, I.3
-
17
-
-
38549146894
-
The Pfam protein families database
-
Finn, R.D., Tate, J., Mistry, J., Coggill, P.C., Sammut, S.J., Hotz, H.R., Ceric, G., Forslund, K., Eddy, S.R., Sonnhammer, E. et al. (2008) The Pfam protein families database. Nucleic Acids Res., 36, D281-D288.
-
(2008)
Nucleic Acids Res.
, vol.36
-
-
Finn, R.D.1
Tate, J.2
Mistry, J.3
Coggill, P.C.4
Sammut, S.J.5
Hotz, H.R.6
Ceric, G.7
Forslund, K.8
Eddy, S.R.9
Sonnhammer, E.10
-
18
-
-
34247112742
-
Simple alignment-free methods for protein classification: a case study from G-protein-coupled receptors
-
Strope, P.K. and Moriyama, E.N. (2007) Simple alignment-free methods for protein classification: a case study from G-protein-coupled receptors. Genomics, 89, 602-612.
-
(2007)
Genomics
, vol.89
, pp. 602-612
-
-
Strope, P.K.1
Moriyama, E.N.2
-
19
-
-
0346750974
-
Detection of DNA-binding helix-turn-helix motifs in proteins using the pattern dictionary method
-
Mathee, K. and Narasimhan, G. (2003) Detection of DNA-binding helix-turn-helix motifs in proteins using the pattern dictionary method. RNA Polym. Assoc. Factors, PTC, 370, 250-264.
-
(2003)
RNA Polym. Assoc. Factors, PTC
, vol.370
, pp. 250-264
-
-
Mathee, K.1
Narasimhan, G.2
-
20
-
-
0024571640
-
The helix-turn-helix DNA binding motif
-
Brennan, R.G. and Matthews, B.W. (1989) The helix-turn-helix DNA binding motif. J Biol Chem, 264, 1903-1906.
-
(1989)
J Biol Chem
, vol.264
, pp. 1903-1906
-
-
Brennan, R.G.1
Matthews, B.W.2
-
21
-
-
0033957469
-
SMART: a web-based tool for the study of genetically mobile domains
-
Schultz, J., Copley, R.R., Doerks, T., Ponting, C.P. and Bork, P. (2000) SMART: a web-based tool for the study of genetically mobile domains. Nucleic Acids Res., 28, 231-234.
-
(2000)
Nucleic Acids Res.
, vol.28
, pp. 231-234
-
-
Schultz, J.1
Copley, R.R.2
Doerks, T.3
Ponting, C.P.4
Bork, P.5
-
22
-
-
0037255072
-
The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003
-
Boeckmann, B., Bairoch, A., Apweiler, R., Blatter, M.C., Estreicher, A., Gasteiger, E., Martin, M.J., Michoud, K., O'Donovan, C., Phan, I. et al. (2003) The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003. Nucleic Acids Res., 31, 365-370.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 365-370
-
-
Boeckmann, B.1
Bairoch, A.2
Apweiler, R.3
Blatter, M.C.4
Estreicher, A.5
Gasteiger, E.6
Martin, M.J.7
Michoud, K.8
O'Donovan, C.9
Phan, I.10
-
24
-
-
73049116280
-
-
LIBSVM: a library for support vector machines. Software available at
-
Chang, C. and Lin, C. (2001) LIBSVM: a library for support vector machines. Software available at http://www.csie.ntu.edu.tw/~cjlin/libsvm.
-
(2001)
-
-
Chang, C.1
Lin, C.2
-
25
-
-
58149191270
-
The Universal Protein Resource (UniProt) 2009
-
Bairoch, A., Consortium, U., Bougueleret, L., Altairac, S., Amendolia, V., Auchincloss, A., Argoud-Puy, G., Axelsen, K., Baratin, D., Blatter, M.C. et al. (2009) The Universal Protein Resource (UniProt) 2009. Nucleic Acids Res., 37, D169-D174.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Bairoch, A.1
Consortium, U.2
Bougueleret, L.3
Altairac, S.4
Amendolia, V.5
Auchincloss, A.6
Argoud-Puy, G.7
Axelsen, K.8
Baratin, D.9
Blatter, M.C.10
-
26
-
-
0031808074
-
A helix propensity scale based on experimental studies of peptides and proteins
-
Pace, C.N. and Scholtz, J.M. (1998) A helix propensity scale based on experimental studies of peptides and proteins. Biophys. J., 75, 422-427.
-
(1998)
Biophys. J.
, vol.75
, pp. 422-427
-
-
Pace, C.N.1
Scholtz, J.M.2
-
27
-
-
20844436424
-
Predicting enzyme subclass by functional domain composition and pseudo amino acid composition
-
Cai, Y.D. and Chou, K.C. (2005) Predicting enzyme subclass by functional domain composition and pseudo amino acid composition. J. Proteome Res., 4, 967-971.
-
(2005)
J. Proteome Res.
, vol.4
, pp. 967-971
-
-
Cai, Y.D.1
Chou, K.C.2
-
28
-
-
0742287001
-
Combining pairwise-sequence similarity and support vector machines for detecting remote protein evolutionary and structural relationships
-
Liao, L. and Noble, W.S. (2003) Combining pairwise-sequence similarity and support vector machines for detecting remote protein evolutionary and structural relationships. J. Comput. Biol., 10, 857-868.
-
(2003)
J. Comput. Biol.
, vol.10
, pp. 857-868
-
-
Liao, L.1
Noble, W.S.2
-
29
-
-
1442275650
-
Enzyme family classification by support vector machines
-
Cai, C.Z., Han, L.Y., Ji, Z.L. and Chen, Y.Z. (2004) Enzyme family classification by support vector machines. Proteins Struct. Funct. Bioinform., 55, 66-76.
-
(2004)
Proteins Struct. Funct. Bioinform.
, vol.55
, pp. 66-76
-
-
Cai, C.Z.1
Han, L.Y.2
Ji, Z.L.3
Chen, Y.Z.4
-
30
-
-
34548434778
-
Functional representation of enzymes by specific peptides
-
Kunik, V., Meroz, Y., Solan, Z., Sandbank, B., Weingart, U., Ruppin, E. and Horn, D. (2007) Functional representation of enzymes by specific peptides. PLOS Comput. Biol., 3, 1623 1632.
-
(2007)
PLOS Comput. Biol.
, vol.3
, pp. 1623-1632
-
-
Kunik, V.1
Meroz, Y.2
Solan, Z.3
Sandbank, B.4
Weingart, U.5
Ruppin, E.6
Horn, D.7
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