-
1
-
-
0037020282
-
Correlated mutation analyses on very large sequence families
-
Oliveira, L., Paiva, A. C., and Vriend, G. (2002) Correlated mutation analyses on very large sequence families, ChemBioChem 3, 1010-1017.
-
(2002)
ChemBioChem
, vol.3
, pp. 1010-1017
-
-
Oliveira, L.1
Paiva, A.C.2
Vriend, G.3
-
2
-
-
0033977832
-
Correlations among amino acid sites in bHLH protein domains: An information theoretic analysis
-
Atchley, W. R., Wollenberg, K. R., Fitch, W. M., Terhalle, W., and Dress, A. W. (2000) Correlations among amino acid sites in bHLH protein domains: an information theoretic analysis, Mol. Biol. Evol. 17, 164-178.
-
(2000)
Mol. Biol. Evol.
, vol.17
, pp. 164-178
-
-
Atchley, W.R.1
Wollenberg, K.R.2
Fitch, W.M.3
Terhalle, W.4
Dress, A.W.5
-
3
-
-
0028832687
-
Covariation of residues in the homeodomain sequence family
-
Clarke, N. D. (1995) Covariation of residues in the homeodomain sequence family, Protein Sci. 4, 2269-2278.
-
(1995)
Protein Sci.
, vol.4
, pp. 2269-2278
-
-
Clarke, N.D.1
-
4
-
-
0027297096
-
Covariation of mutations in the V3 loop of human immunodeficiency virus type 1 envelope protein: An information theoretic analysis
-
Korber, B. T., Farber, R. M., Wolpert, D. H., and Lapedes, A. S. (1993) Covariation of mutations in the V3 loop of human immunodeficiency virus type 1 envelope protein: an information theoretic analysis, Proc. Natl. Acad. Sci U.S.A. 90, 7176-7180.
-
(1993)
Proc. Natl. Acad. Sci U.S.A.
, vol.90
, pp. 7176-7180
-
-
Korber, B.T.1
Farber, R.M.2
Wolpert, D.H.3
Lapedes, A.S.4
-
5
-
-
0037433701
-
Using multiple interdependency to separate functional from phylogenetic correlations in protein alignments
-
Tillier, E. R., and Lui, T. W. (2003) Using multiple interdependency to separate functional from phylogenetic correlations in protein alignments, Bioinformatics 19, 750-755.
-
(2003)
Bioinformatics
, vol.19
, pp. 750-755
-
-
Tillier, E.R.1
Lui, T.W.2
-
6
-
-
85142178743
-
Using information theory to search for co-evolving residues in proteins
-
submitted for publication
-
Martin, L. C., Gloor, G. B., Dunn, S. D., and Wahl, L. M. Using information theory to search for co-evolving residues in proteins, Bioinformatics, submitted for publication.
-
Bioinformatics
-
-
Martin, L.C.1
Gloor, G.B.2
Dunn, S.D.3
Wahl, L.M.4
-
7
-
-
0042902833
-
The COG database: An updated version includes eukaryotes
-
Tatusov, R. L., Fedorova, N. D., Jackson, J. D., Jacobs, A. R., Kiryutin, B., Koonin, E. V., Krylov, D. M., Mazumder, R., Mekhedov, S. L., Nikolskaya, A. N., Rao, B. S., Smirnov, S., Sverdlov, A. V., Vasudevan, S., Wolf, Y. I., Yin, J. J., and Natale, D. A. (2003) The COG database: an updated version includes eukaryotes, BMC Bioinf. 4, 41.
-
(2003)
BMC Bioinf.
, vol.4
, pp. 41
-
-
Tatusov, R.L.1
Fedorova, N.D.2
Jackson, J.D.3
Jacobs, A.R.4
Kiryutin, B.5
Koonin, E.V.6
Krylov, D.M.7
Mazumder, R.8
Mekhedov, S.L.9
Nikolskaya, A.N.10
Rao, B.S.11
Smirnov, S.12
Sverdlov, A.V.13
Vasudevan, S.14
Wolf, Y.I.15
Yin, J.J.16
Natale, D.A.17
-
8
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
Altschul, S. F., Madden, T. L., Schaffer, A. A., Zhang, J., Zhang, Z., Miller, W., and Lipman, D. J. (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.F.1
Madden, T.L.2
Schaffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.J.7
-
9
-
-
0037249570
-
The homeodomain resource: 2003 update
-
Banerjee-Basu, S., Moreland, T., Hsu, B. J., Trout, K. L., and Baxevanis, A. D. (2003) The homeodomain resource: 2003 update, Nucleic Acids Res. 31, 304-306.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 304-306
-
-
Banerjee-Basu, S.1
Moreland, T.2
Hsu, B.J.3
Trout, K.L.4
Baxevanis, A.D.5
-
10
-
-
0029936121
-
Surprising similarities in structure comparison
-
Gibrat, J. F., Madej, T., and Bryant, S. H. (1996) Surprising similarities in structure comparison, Curr. Opin. Struct. Biol. 6, 377-385.
-
(1996)
Curr. Opin. Struct. Biol.
, vol.6
, pp. 377-385
-
-
Gibrat, J.F.1
Madej, T.2
Bryant, S.H.3
-
11
-
-
0029785147
-
Mapping the protein universe
-
Holm, L., and Sander, C. (1996) Mapping the protein universe, Science 273, 595-603.
-
(1996)
Science
, vol.273
, pp. 595-603
-
-
Holm, L.1
Sander, C.2
-
12
-
-
0034213347
-
Cn3D: Sequence and structure views for Entrez
-
Wang, Y., Geer, L. Y., Chappey, C., Kans, J. A., and Bryant, S. H. (2000) Cn3D: sequence and structure views for Entrez, Trends Biochem. Sci. 25, 300-302.
-
(2000)
Trends Biochem. Sci.
, vol.25
, pp. 300-302
-
-
Wang, Y.1
Geer, L.Y.2
Chappey, C.3
Kans, J.A.4
Bryant, S.H.5
-
13
-
-
0042121237
-
Multiple sequence alignment with the Clustal series of programs
-
Chenna, R., Sugawara, H., Koike, T., Lopez, R., Gibson, T. J., Higgins, D. G., and Thompson, J. D. (2003) Multiple sequence alignment with the Clustal series of programs, Nucleic Acids Res. 31, 3497-3500.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 3497-3500
-
-
Chenna, R.1
Sugawara, H.2
Koike, T.3
Lopez, R.4
Gibson, T.J.5
Higgins, D.G.6
Thompson, J.D.7
-
14
-
-
1342288004
-
The Jalview Java alignment editor
-
Clamp, M., Cuff, J., Searle, S. M., and Barton, G. J. (2004) The Jalview Java alignment editor, Bioinformatics 20, 426-427.
-
(2004)
Bioinformatics
, vol.20
, pp. 426-427
-
-
Clamp, M.1
Cuff, J.2
Searle, S.M.3
Barton, G.J.4
-
15
-
-
0004280469
-
-
Interscience Publishers, New York
-
Ash, R. B. (1965) Information Theory, Interscience Publishers, New York.
-
(1965)
Information Theory
-
-
Ash, R.B.1
-
16
-
-
5644289795
-
Normalized similarity measures for medical image registration
-
Fitzpatrick, J. M., and Sonka, M., Eds. SPIE, San Diego, CA
-
Bardera, A., Feixas, M., and Boada, I. (2004) Normalized similarity measures for medical image registration, in International Symposium in Medical Imaging (Fitzpatrick, J. M., and Sonka, M., Eds.) pp 108-118, SPIE, San Diego, CA.
-
(2004)
International Symposium in Medical Imaging
, pp. 108-118
-
-
Bardera, A.1
Feixas, M.2
Boada, I.3
-
17
-
-
0344868502
-
The structure of chorismate synthase reveals a novel flavin binding site fundamental to a unique chemical reaction
-
Maclean, J., and Ali, S. (2003) The structure of chorismate synthase reveals a novel flavin binding site fundamental to a unique chemical reaction. Structure 11, 1499-1511.
-
(2003)
Structure
, vol.11
, pp. 1499-1511
-
-
Maclean, J.1
Ali, S.2
-
18
-
-
0027764466
-
Crystal structure of Myxococcus xanthus nucleoside diphosphate kinase and its interaction with a nucleotide substrate at 2.0 Å resolution
-
Williams, R. L., Oren, D. A., Munoz-Dorado, J., Inouye, S., Inouye, M., and Arnold, E. (1993) Crystal structure of Myxococcus xanthus nucleoside diphosphate kinase and its interaction with a nucleotide substrate at 2.0 Å resolution, J. Mol. Biol. 234, 1230-1247.
-
(1993)
J. Mol. Biol.
, vol.234
, pp. 1230-1247
-
-
Williams, R.L.1
Oren, D.A.2
Munoz-Dorado, J.3
Inouye, S.4
Inouye, M.5
Arnold, E.6
-
19
-
-
0036606212
-
X-ray structure of Mycobacterium tuberculosis nucleoside diphosphate kinase
-
Chen, Y., Morera, S., Mocan, J., Lascu, I., and Janin, J. (2002) X-ray structure of Mycobacterium tuberculosis nucleoside diphosphate kinase, Proteins 47, 556-557.
-
(2002)
Proteins
, vol.47
, pp. 556-557
-
-
Chen, Y.1
Morera, S.2
Mocan, J.3
Lascu, I.4
Janin, J.5
-
20
-
-
0033539594
-
Insights into the mechanism of Escherichia coli methionine aminopeptidase from the structural analysis of reaction products and phosphorus-based transition-state analogues
-
Lowther, W. T., Zhang, Y., Sampson, P. B., Honek, J. F., and Matthews, B. W. (1999) Insights into the mechanism of Escherichia coli methionine aminopeptidase from the structural analysis of reaction products and phosphorus-based transition-state analogues, Biochemistry 38, 14810-14819.
-
(1999)
Biochemistry
, vol.38
, pp. 14810-14819
-
-
Lowther, W.T.1
Zhang, Y.2
Sampson, P.B.3
Honek, J.F.4
Matthews, B.W.5
-
21
-
-
0023644310
-
Structure of holo-glyceraldehyde-3-phosphate dehydrogenase from Bacillus stearothermophilus at 1.8 Å resolution
-
Skarzynski, T., Moody, P. C., and Wonacott, A. J. (1987) Structure of holo-glyceraldehyde-3-phosphate dehydrogenase from Bacillus stearothermophilus at 1.8 Å resolution, J. Mol. Biol. 193, 171-187.
-
(1987)
J. Mol. Biol.
, vol.193
, pp. 171-187
-
-
Skarzynski, T.1
Moody, P.C.2
Wonacott, A.J.3
-
22
-
-
0035169038
-
Missense mutations of human homeoboxes: A review
-
D'Elia, A. V., Tell, G., Paron, I., Pellizzari, L., Lonigro, R., and Damante, G. (2001) Missense mutations of human homeoboxes: a review, Hum. Mutat. 18, 361-374.
-
(2001)
Hum. Mutat.
, vol.18
, pp. 361-374
-
-
D'Elia, A.V.1
Tell, G.2
Paron, I.3
Pellizzari, L.4
Lonigro, R.5
Damante, G.6
-
23
-
-
0030019846
-
Characterization of the interface between gamma and epsilon subunits of Escherichia coli F1-ATPase
-
Tang, C., and Capaldi, R. A. (1996) Characterization of the interface between gamma and epsilon subunits of Escherichia coli F1-ATPase, J. Biol. Chem, 271, 3018-3024.
-
(1996)
J. Biol. Chem
, vol.271
, pp. 3018-3024
-
-
Tang, C.1
Capaldi, R.A.2
-
24
-
-
0028970605
-
Alanine-scanning mutagenesis of the epsilon subunit of the F1-F0 ATP synthase from Escherichia coli reveals two classes of mutants
-
Xiong, H., and Vik, S. B. (1995) Alanine-scanning mutagenesis of the epsilon subunit of the F1-F0 ATP synthase from Escherichia coli reveals two classes of mutants, J. Biol. Chem. 270, 23300-23304.
-
(1995)
J. Biol. Chem.
, vol.270
, pp. 23300-23304
-
-
Xiong, H.1
Vik, S.B.2
-
25
-
-
0032541944
-
Subunit epsilon of the Escherichia coli ATP synthase: Novel insights into structure and function by analysis of thirteen mutant forms
-
Xiong, H., Zhang, D., and Vik, S. B. (1998) Subunit epsilon of the Escherichia coli ATP synthase: novel insights into structure and function by analysis of thirteen mutant forms, Biochemistry 37, 16423-16429.
-
(1998)
Biochemistry
, vol.37
, pp. 16423-16429
-
-
Xiong, H.1
Zhang, D.2
Vik, S.B.3
-
27
-
-
0034614321
-
Do proteins learn to evolve? The Hopfield network as a basis for the understanding of protein evolution
-
Pritchard, L., and Dufton, M. J. (2000) Do proteins learn to evolve? The Hopfield network as a basis for the understanding of protein evolution, J. Theor. Biol. 202, 77-86.
-
(2000)
J. Theor. Biol.
, vol.202
, pp. 77-86
-
-
Pritchard, L.1
Dufton, M.J.2
-
28
-
-
17444407069
-
A structure-based method for protein sequence alignment
-
Kann, M. G., Thiessen, P. A., Panchenko, A. R., Schaffer, A. A., Altschul, S. F., and Bryant, S. H. (2005) A structure-based method for protein sequence alignment. Bioinformatics 21, 1451-1456.
-
(2005)
Bioinformatics
, vol.21
, pp. 1451-1456
-
-
Kann, M.G.1
Thiessen, P.A.2
Panchenko, A.R.3
Schaffer, A.A.4
Altschul, S.F.5
Bryant, S.H.6
-
29
-
-
0034724418
-
Separation of phylogenetic and functional associations in biological sequences by using the parametric bootstrap
-
Wollenberg, K. R., and Atchley, W. R. (2000) Separation of phylogenetic and functional associations in biological sequences by using the parametric bootstrap, Proc. Natl. Acad. Sci. U.S.A. 97, 3288-3291.
-
(2000)
Proc. Natl. Acad. Sci. U.S.A.
, vol.97
, pp. 3288-3291
-
-
Wollenberg, K.R.1
Atchley, W.R.2
|