-
1
-
-
21144458797
-
Order-Value Optimization: Formulation and solution by means of a primal Cauchy method
-
Andreani R., Dunder C. and Martínez J.M. (2003). Order-Value Optimization: formulation and solution by means of a primal Cauchy method. Math. Methods Oper. Res. 58: 387-399
-
(2003)
Math. Methods Oper. Res.
, vol.58
, pp. 387-399
-
-
Andreani, R.1
Dunder, C.2
Martínez, J.M.3
-
2
-
-
34547446957
-
Low order-value optimization and applications
-
Department of Applied Mathematics, State University of Campinas, Brazil
-
Andreani, R., Martínez, J.M., Martínez, L., Yano, F.: Low Order-Value Optimization and Applications. In: Technical Report MCDO 051013, Department of Applied Mathematics, State University of Campinas, Brazil, 2005
-
(2005)
Technical Report
, vol.MCDO 051013
-
-
Andreani, R.1
Martínez, J.M.2
Martínez, L.3
Yano, F.4
-
3
-
-
34547429254
-
Quasi-Newton methods for order-value optimization and value-at-risk calculations
-
Andreani R., Martínez J.M., Salvatierra M. and Yano F. (2006). Quasi-Newton methods for order-value optimization and value-at-risk calculations. Pac. J. Optim. 2: 11-33
-
(2006)
Pac. J. Optim.
, vol.2
, pp. 11-33
-
-
Andreani, R.1
Martínez, J.M.2
Salvatierra, M.3
Yano, F.4
-
4
-
-
0033954256
-
The protein data bank
-
Berman H.M., Westbrook J., Feng Z., Gilliland G., Bhat T.N., Weissig H., Shindyalov I.N. and Bourne P.E. (2000). The protein data bank. Nucleic Acids Res. 28: 235-242
-
(2000)
Nucleic Acids Res.
, vol.28
, pp. 235-242
-
-
Berman, H.M.1
Westbrook, J.2
Feng, Z.3
Gilliland, G.4
Bhat, T.N.5
Weissig, H.6
Shindyalov, I.N.7
Bourne, P.E.8
-
5
-
-
17744385967
-
Two applications of the Divide & Conquer principle in the molecular sciences
-
Brinkmann G., Dress A.W.M., Perrey S.W. and Stoye J. (1997). Two applications of the Divide & Conquer principle in the molecular sciences. Math. Program. 79: 71-97
-
(1997)
Math. Program.
, vol.79
, pp. 71-97
-
-
Brinkmann, G.1
Dress, A.W.M.2
Perrey, S.W.3
Stoye, J.4
-
6
-
-
0038485624
-
Structural impact of the Leukemia Drug 1-Beta-D-Arabinofuranosyleytosine (Ara-C) on the Covalent Human Topoisomerase I-DNA Complex
-
Chreneik J.E., Burgin A.B., Pommier Y., Stewart L. and Redinbo M.R. (2003). Structural impact of the Leukemia Drug 1-Beta-D-Arabinofuranosyleytosine (Ara-C) on the Covalent Human Topoisomerase I-DNA Complex. J. Biol. Chem 278: 12461-12466
-
(2003)
J. Biol. Chem
, vol.278
, pp. 12461-12466
-
-
Chreneik, J.E.1
Burgin, A.B.2
Pommier, Y.3
Stewart, L.4
Redinbo, M.R.5
-
7
-
-
0031938039
-
Comprehensive assessment of automatic structural alignment against a manual standard, the Scop classification of proteins
-
Gerstein M. and Levitt M. (1998). Comprehensive assessment of automatic structural alignment against a manual standard, the Scop classification of proteins. Protein Sci. 7: 445-456
-
(1998)
Protein Sci.
, vol.7
, pp. 445-456
-
-
Gerstein, M.1
Levitt, M.2
-
9
-
-
0033824470
-
DaliLite workbench for protein structure comparison
-
Holm L. and Park J. (2000). DaliLite workbench for protein structure comparison. Bioinformatics 16: 566-567
-
(2000)
Bioinformatics
, vol.16
, pp. 566-567
-
-
Holm, L.1
Park, J.2
-
10
-
-
0027440362
-
Protein structure comparison by alignment of distance matrices
-
Holm L. and Sander C. (1993). Protein structure comparison by alignment of distance matrices. J. Mol. Biol. 233: 123-138
-
(1993)
J. Mol. Biol.
, vol.233
, pp. 123-138
-
-
Holm, L.1
Sander, C.2
-
11
-
-
0029785147
-
Mapping the protein universe
-
Holm L. and Sander C. (1996). Mapping the protein universe. Science 273: 595-602
-
(1996)
Science
, vol.273
, pp. 595-602
-
-
Holm, L.1
Sander, C.2
-
12
-
-
12944249776
-
A discussion of the solution for the best rotation to relate two sets of vectors
-
Kabsch W. (1978). A discussion of the solution for the best rotation to relate two sets of vectors. Acta Crystallog. A 34: 827-828
-
(1978)
Acta Crystallog. A
, vol.34
, pp. 827-828
-
-
Kabsch, W.1
-
13
-
-
0002404088
-
On the orthogonal transformation used for structural comparisons
-
Kearsley S.K. (1989). On the orthogonal transformation used for structural comparisons. Acta Crystallog. A 45: 208-210
-
(1989)
Acta Crystallog. A
, vol.45
, pp. 208-210
-
-
Kearsley, S.K.1
-
14
-
-
0032749097
-
Unit-vector RMS (URMS) as a tool to analyze molecular dynamics trajectories
-
Kedem K., Chew L.P. and Elber R. (1999). Unit-vector RMS (URMS) as a tool to analyze molecular dynamics trajectories. Proteins 37: 554-564
-
(1999)
Proteins
, vol.37
, pp. 554-564
-
-
Kedem, K.1
Chew, L.P.2
Elber, R.3
-
15
-
-
0030501419
-
Use of non-crystallographic symmetry in protein structure refinement
-
Kleywegt G.J. (1996). Use of non-crystallographic symmetry in protein structure refinement. Acta Crystallog. D 52: 842-857
-
(1996)
Acta Crystallog. D
, vol.52
, pp. 842-857
-
-
Kleywegt, G.J.1
-
16
-
-
13444279981
-
Comprehensive evaluation of protein structure alignment methods: Scoring by geometric measures
-
Kolodny R., Koehl P. and Levitt M. (2005). Comprehensive evaluation of protein structure alignment methods: scoring by geometric measures. J. Mol. Biol. 346: 1173-1188
-
(2005)
J. Mol. Biol.
, vol.346
, pp. 1173-1188
-
-
Kolodny, R.1
Koehl, P.2
Levitt, M.3
-
17
-
-
4344656723
-
Approximate protein structural alignment in polynomial time
-
Kolodny R. and Linial N. (2004). Approximate protein structural alignment in polynomial time. P. Natl. Acad. Sci. USA 101: 12201-12206
-
(2004)
P. Natl. Acad. Sci. USA
, vol.101
, pp. 12201-12206
-
-
Kolodny, R.1
Linial, N.2
-
18
-
-
1842781469
-
Protein structure comparison in 3D based on secondary structure matching (SSM) followed by C-alpha alignment, scored by a new structural similarity function
-
[Kungl, A.J., Kungl, P.J. (eds.)] Vienna, September 3-7
-
Krissinel, E., Henrick, K.: Protein structure comparison in 3D based on secondary structure matching (SSM) followed by C-alpha alignment, scored by a new structural similarity function. In: [Kungl, A.J., Kungl, P.J. (eds.)] Proceedings of the First international Conference on Molecular Structural Biology. Vienna, September 3-7 (2003)
-
(2003)
Proceedings of the First International Conference on Molecular Structural Biology
-
-
Krissinel, E.1
Henrick, K.2
-
19
-
-
13444307044
-
Secondary-structure matching (SSM), a new tool for fast protein structure alignment in three dimensions
-
Krissinel E. and Henrick K. (2004). Secondary-structure matching (SSM), a new tool for fast protein structure alignment in three dimensions. Acta Crystallog. D 60: 2256-2268
-
(2004)
Acta Crystallog. D
, vol.60
, pp. 2256-2268
-
-
Krissinel, E.1
Henrick, K.2
-
20
-
-
25144458667
-
A new progressive-iterative algorithm for multiple structure alignment
-
Lupyan D., Leo-Macias A. and Ortiz A.R. (2005). A new progressive-iterative algorithm for multiple structure alignment. Bioinformatics 21: 3255-3263
-
(2005)
Bioinformatics
, vol.21
, pp. 3255-3263
-
-
Lupyan, D.1
Leo-Macias, A.2
Ortiz, A.R.3
-
21
-
-
0014757386
-
A general method applicable to the search for similarities in the amino acid sequence of two proteins
-
Needleman B. and Wounsch C.D. (1970). A general method applicable to the search for similarities in the amino acid sequence of two proteins. J. Mol. Biol. 48: 443-453
-
(1970)
J. Mol. Biol.
, vol.48
, pp. 443-453
-
-
Needleman, B.1
Wounsch, C.D.2
-
22
-
-
0038669634
-
Flashsort1 Algorithm
-
Neubert K.D. (1998). Flashsort1 Algorithm. Dr. Dobb's J. 23: 123-124
-
(1998)
Dr. Dobb's J.
, vol.23
, pp. 123-124
-
-
Neubert, K.D.1
-
24
-
-
16644373256
-
Crystallization and preliminary X-ray diffraction studies of isoform alpha 1 of the human thyroid hormone receptor ligand-binding domain
-
Nunes A.M., Aparicio R., Santos M.A.M., Portugal R.V, Dias S.M.G., Neves F.A.R, Simeoni L.A., Baxter J.D., Webb P. and Polikarpov I. (2004). Crystallization and preliminary X-ray diffraction studies of isoform alpha 1 of the human thyroid hormone receptor ligand-binding domain. Acta Crystallog. D 60: 1867-1870
-
(2004)
Acta Crystallog. D
, vol.60
, pp. 1867-1870
-
-
Nunes, A.M.1
Aparicio, R.2
Santos, M.A.M.3
Portugal, R.V.4
Dias, S.M.G.5
Neves, A.R.6
Simeoni, L.A.7
Baxter, J.D.8
Webb, P.9
Polikarpov, I.10
-
25
-
-
0036839162
-
MAMMOTH (matching molecular models obtained from theory): An automated method for model comparison
-
Ortiz A.R., Strauss C.E. and Olmea O. (2002). MAMMOTH (matching molecular models obtained from theory): an automated method for model comparison. Protein Sci. 11: 2606-2621
-
(2002)
Protein Sci.
, vol.11
, pp. 2606-2621
-
-
Ortiz, A.R.1
Strauss, C.E.2
Olmea, O.3
-
26
-
-
0032489634
-
Crystal structures of Human Topoisomerase i in covalent and noncovalent complexes with DNA
-
Redinbo M.R., Stewart L., Kuhn P., Champoux J.J. and Hol W.G.J. (1998). Crystal structures of Human Topoisomerase I in covalent and noncovalent complexes with DNA. Science 279: 1504-1513
-
(1998)
Science
, vol.279
, pp. 1504-1513
-
-
Redinbo, M.R.1
Stewart, L.2
Kuhn, P.3
Champoux, J.J.4
Hol, W.G.J.5
-
27
-
-
16344364490
-
Extracting multiple structural alignments: A comparison of a rigorous and a heuristic approach
-
Sandelin E. (2005). Extracting multiple structural alignments: a comparison of a rigorous and a heuristic approach. Bioinformatics 21: 1002-1009
-
(2005)
Bioinformatics
, vol.21
, pp. 1002-1009
-
-
Sandelin, E.1
-
28
-
-
0036681439
-
Flexible protein alignment and hinge detection
-
Shatsky M., Nussinov R. and Wolfson H.J. (2002). Flexible protein alignment and hinge detection. Proteins 48: 242-256
-
(2002)
Proteins
, vol.48
, pp. 242-256
-
-
Shatsky, M.1
Nussinov, R.2
Wolfson, H.J.3
-
29
-
-
0031715982
-
Protein structure alignment by incremental combinatorial extension (CE) of the optimal path
-
Shyndialov I.N. and Bourne P.E. (1998). Protein structure alignment by incremental combinatorial extension (CE) of the optimal path. Protein Eng. 1: 739-747
-
(1998)
Protein Eng.
, vol.1
, pp. 739-747
-
-
Shyndialov, I.N.1
Bourne, P.E.2
-
30
-
-
0000840656
-
Structural similarity of DNA-binding domains of bacteriophage repressors and the globin core
-
Subbiah S., Laurents D.V. and Levitt M. (1993). Structural similarity of DNA-binding domains of bacteriophage repressors and the globin core. Curr. Biol. 3: 141-148
-
(1993)
Curr. Biol.
, vol.3
, pp. 141-148
-
-
Subbiah, S.1
Laurents, D.V.2
Levitt, M.3
-
31
-
-
0033011876
-
Protein structure alignment using iterated double dynamic programming
-
Taylor W.R. (1991). Protein structure alignment using iterated double dynamic programming. Protein Sci. 8: 654-665
-
(1991)
Protein Sci.
, vol.8
, pp. 654-665
-
-
Taylor, W.R.1
-
32
-
-
0024349252
-
Protein structure alignment
-
Taylor W.R. and Orengo C.A. (1989). Protein structure alignment. J. Mol. Biol. 208: 1-22
-
(1989)
J. Mol. Biol.
, vol.208
, pp. 1-22
-
-
Taylor, W.R.1
Orengo, C.A.2
-
33
-
-
0015960104
-
String-to-string correction problem
-
Wagner R.A. and Fischer M.J. (1974). string-to-string correction problem. J. ACM 21: 168-173
-
(1974)
J. ACM
, vol.21
, pp. 168-173
-
-
Wagner, R.A.1
Fischer, M.J.2
-
35
-
-
3042581007
-
Flexible structure alignment by chaining aligned fragment pairs allowing twists
-
Suppl. 2
-
Ye Y. and Godzik A. (2003). Flexible structure alignment by chaining aligned fragment pairs allowing twists. Bioinformatics 19(Suppl. 2): ii246-ii255
-
(2003)
Bioinformatics
, vol.19
-
-
Ye, Y.1
Godzik, A.2
-
36
-
-
0037464499
-
Thyroid receptor ligands. 1. Agonist ligands selective for the thyroid receptor beta(1)
-
Ye L., Li Y.L., Mellstrom K., Mellin C., Bladh L.G., Koehler K., Garg N., Collazo A.M.G., Litten C., Husman B., Persson K., Ljunggren J., Grover G., Sleph P.G., George R. and Malm J. (2003). Thyroid receptor ligands. 1. Agonist ligands selective for the thyroid receptor beta(1). J. Med. Chem. 46: 1580-1588
-
(2003)
J. Med. Chem.
, vol.46
, pp. 1580-1588
-
-
Ye, L.1
Li, Y.L.2
Mellstrom, K.3
Mellin, C.4
Bladh, L.G.5
Koehler, K.6
Garg, N.7
Collazo, A.M.G.8
Litten, C.9
Husman, B.10
Persson, K.11
Ljunggren, J.12
Grover, G.13
Sleph, P.G.14
George, R.15
Malm, J.16
-
37
-
-
12944271968
-
A novel protein structure alignment algorithm
-
Zhu J. and Weng Z. (2005). A novel protein structure alignment algorithm. Proteins 58: 618-627
-
(2005)
Proteins
, vol.58
, pp. 618-627
-
-
Zhu, J.1
Weng, Z.2
|