-
1
-
-
8344271208
-
Experimental evaluation of a tree decomposition-based algorithm for vertex cover on planar graphs
-
Alber, J., Dorn, F., and Niedermeier R. 2005. Experimental evaluation of a tree decomposition-based algorithm for vertex cover on planar graphs. Discrete Appl. Math. 145, 219-231.
-
(2005)
Discrete Appl. Math.
, vol.145
, pp. 219-231
-
-
Alber, J.1
Dorn, F.2
Niedermeier, R.3
-
3
-
-
0000245736
-
-
SIAM J. Algebra. Discr.
-
Arnborg, S., Corneil, D.G., and Proskurowski, A. 1987. Complexity of finding embeddings in a k-tree. SIAM J. Algebra. Discr. 8, 227-284.
-
(1987)
Complexity of Finding Embeddings in A K-tree.
, vol.8
, pp. 227-284
-
-
Arnborg, S.1
Corneil, D.G.2
Proskurowski, A.3
-
4
-
-
0029633168
-
GROMACS: A message-passing parallel molecular dynamics implementation
-
Berendsen, H.J.C., van der Spoel, D., and Van Drunen, R. 1995. GROMACS: a message-passing parallel molecular dynamics implementation. Com. Phys. Comm. 91, 43-56.
-
(1995)
Com. Phys. Comm.
, vol.91
, pp. 43-56
-
-
Berendsen, H.J.C.1
Van Der Spoel, D.2
Van Drunen, R.3
-
5
-
-
0024578173
-
Free energy via molecular simulation: Applications to chemical and biomolecular systems
-
Beveridge, D.L., and DiCapua, F.M. 1989. Free energy via molecular simulation: applications to chemical and biomolecular systems. Annu. Rev. Biophys. Biophys. Chem. 18, 431-492.
-
(1989)
Annu. Rev. Biophys. Biophys. Chem.
, vol.18
, pp. 431-492
-
-
Beveridge, D.L.1
Dicapua, F.M.2
-
6
-
-
85023770844
-
NC-algorithms for graphs with small treewidth
-
Van Leeuwen, J., Ed.
-
Bodlaender, H.L. 1989. NC-algorithms for graphs with small treewidth. In van Leeuwen, J., ed., Proc. 14th International Workshop on Graph-Theoretic Concepts in Computer Science (WG 1988), Lecture Notes in Computer Science 344, 1-10.
-
(1989)
Proc. 14th International Workshop on Graph-Theoretic Concepts in Computer Science (WG 1988), Lecture Notes in Computer Science
, vol.344
, pp. 1-10
-
-
Bodlaender, H.L.1
-
7
-
-
0002981945
-
A partial k-arboretum of graphs with bounded treewidth
-
Bodlaender, H.L. 1998. A partial k-arboretum of graphs with bounded treewidth. Theor. Comput. Sci., 209, 1-45.
-
(1998)
Theor. Comput. Sci.
, vol.209
, pp. 1-45
-
-
Bodlaender, H.L.1
-
8
-
-
77953805203
-
Effect of pH and ibuprofen on the phospholipid bilayer bending modulus
-
Boggara, M.B.B., Faraone, A., and Krishnamoorti, R. 2010. Effect of pH and ibuprofen on the phospholipid bilayer bending modulus. J. Phys. Chem. B 114, 8061-8066.
-
(2010)
J. Phys. Chem. B
, vol.114
, pp. 8061-8066
-
-
Boggara, M.B.B.1
Faraone, A.2
Krishnamoorti, R.3
-
9
-
-
67650500988
-
CHARMM: The biomolecular simulation program
-
Sp. Iss. SI
-
Brooks, B.R., Brooks III, C.L., and Mackerell Jr., et al. 2009. CHARMM: The Biomolecular Simulation Program. J. Comput. Chem. 30(10, Sp. Iss. SI), 1545-1614.
-
(2009)
J. Comput. Chem.
, vol.30
, Issue.10
, pp. 1545-1614
-
-
Brooks, B.R.1
Brooks III, C.L.2
Mackerell, J.R.3
-
10
-
-
0029011701
-
A second generation force field for the simulation of proteins, nucleic acids, and organic molecules
-
Cornell, W.D., Cieplak, P., Bayly, C.I., et al. A second generation force field for the simulation of proteins, nucleic acids, and organic molecules. J. Am. Chem. Soc. 117, 5179-5197.
-
J. Am. Chem. Soc.
, vol.117
, pp. 5179-5197
-
-
Cornell, W.D.1
Cieplak, P.2
Bayly, C.I.3
-
11
-
-
79951989026
-
Automated bond order assignment as an optimization problem
-
Dehof, A., Rurainski, A., Bui, Q.B.A., et al. 2011. Automated bond order assignment as an optimization problem. Bioinformatics, 27, 619-625.
-
(2011)
Bioinformatics
, vol.27
, pp. 619-625
-
-
Dehof, A.1
Rurainski, A.2
Bui, Q.B.A.3
-
12
-
-
0020709558
-
On the complexity of partitioning graphs into connected subgraphs
-
Dyer, M., and Frieze, A. 1985. On the complexity of partitioning graphs into connected subgraphs. Discrete Appl. Math. 10, 139-153.
-
(1985)
Discrete Appl. Math.
, vol.10
, pp. 139-153
-
-
Dyer, M.1
Frieze, A.2
-
13
-
-
0031616705
-
Charge distribution from a simple molecular orbital type calculation and non-bonding interaction terms in the force field mab
-
Gerber, P.R. 1998. Charge distribution from a simple molecular orbital type calculation and non-bonding interaction terms in the force field mab. J. Comput.-Aided Mol. Des. 12, 37-51.
-
(1998)
J. Comput.-Aided Mol. Des.
, vol.12
, pp. 37-51
-
-
Gerber, P.R.1
-
14
-
-
0036081122
-
LIGAND: Database of chemical compounds and reactions in biological pathways
-
Goto, S., Okuno, Y., Hattori, M., et al. 2002. LIGAND: database of chemical compounds and reactions in biological pathways. Nucleic Acids Res. 30, 402-404.
-
(2002)
Nucleic Acids Res
, vol.30
, pp. 402-404
-
-
Goto, S.1
Okuno, Y.2
Hattori, M.3
-
15
-
-
77958077680
-
Frequent subgraph mining in outer planar graphs
-
Horva'th, T., Ramon, J., and Wrobel, S. 2010. Frequent subgraph mining in outer planar graphs. Data Min. Knowl. Discov. 21, 472-508.
-
(2010)
Data Min. Knowl. Discov.
, vol.21
, pp. 472-508
-
-
Horva'Th, T.1
Ramon, J.2
Wrobel, S.3
-
16
-
-
0029912748
-
Development and testing of the OPLS all-atom force field on conformational energetics and properties of organic liquids
-
Jorgensen, W.L., Maxwell, D.S., and Tirado-Rives, J. 1996. Development and testing of the OPLS all-atom force field on conformational energetics and properties of organic liquids. J. Am. Chem. Soc. 118, 11225-11236.
-
(1996)
J. Am. Chem. Soc.
, vol.118
, pp. 11225-11236
-
-
Jorgensen, W.L.1
Maxwell, D.S.2
Tirado-Rives, J.3
-
17
-
-
78650680564
-
Practical considerations for building GROMOS-compatible smallmolecule topologies
-
Lemkul, J.A., Allen, W.J., and Bevan, D.R. 2010. Practical considerations for building GROMOS-compatible smallmolecule topologies. J. Chem. Inf. Model. 50, 2221-2235.
-
(2010)
J. Chem. Inf. Model.
, vol.50
, pp. 2221-2235
-
-
Lemkul, J.A.1
Allen, W.J.2
Bevan, D.R.3
-
18
-
-
84961981789
-
An automated force field topology builder (ATB) and repository: Version 1.0
-
Malde, A.K., Zuo, L., Breeze, M., et al. 2011. An automated force field topology builder (ATB) and repository: version 1.0. J. Chem. Theory Comput. 7, 4026-4037.
-
(2011)
J. Chem. Theory Comput.
, vol.7
, pp. 4026-4037
-
-
Malde, A.K.1
Zuo, L.2
Breeze, M.3
-
19
-
-
4444282928
-
A biomolecular force field based on the free enthalpy of hydration and solvation: The GROMOS force-field parameter sets 53A5 and 53A6
-
Oostenbrink, C., Villa, A., Mark, A.E., and van Gunsteren, W.F. 2004. A biomolecular force field based on the free enthalpy of hydration and solvation: The GROMOS force-field parameter sets 53A5 and 53A6. J. Comp. Chem. 25, 1656-1676.
-
(2004)
J. Comp. Chem.
, vol.25
, pp. 1656-1676
-
-
Oostenbrink, C.1
Villa, A.2
Mark, A.E.3
Van Gunsteren, W.F.4
-
20
-
-
0000673493
-
Graph minors. II. Algorithmic aspects of tree-width
-
Robertson, N., and Seymour, P.D. 1986. Graph minors. II. Algorithmic aspects of tree-width. J. Algorithms 7, 309-322.
-
(1986)
J. Algorithms
, vol.7
, pp. 309-322
-
-
Robertson, N.1
Seymour, P.D.2
-
21
-
-
79959713919
-
Definition and testing of the GROMOS force-field versions 54A7 and 54B7
-
Schmid, N., Eichenberger, A., Choutko, A., et al. 2011. Definition and testing of the GROMOS force-field versions 54A7 and 54B7. Eur. Biophys. J. 40, 843-856.
-
(2011)
Eur. Biophys. J.
, vol.40
, pp. 843-856
-
-
Schmid, N.1
Eichenberger, A.2
Choutko, A.3
-
22
-
-
7544226311
-
PRODRG: A tool for high-throughput crystallography of protein-ligand complexes
-
Schu?ttelkopf, A.W., and van Aalten, D.M. 2004. PRODRG: a tool for high-throughput crystallography of protein-ligand complexes. Acta Crystallogr. 60, 1355-1363.
-
(2004)
Acta Crystallogr
, vol.60
, pp. 1355-1363
-
-
Schuttelkopf, A.W.1
Van Aalten, D.M.2
-
23
-
-
0008819754
-
The GROMOS biomolecular simulation program package
-
Scott, W.R.P., Hu?nenberger, P.H., Tironi, I. G., et al. 1999. The GROMOS biomolecular simulation program package. J. Phys. Chem. A 103, 3596-3607.
-
(1999)
J. Phys. Chem. A
, vol.103
, pp. 3596-3607
-
-
Scott, W.R.P.1
Hunenberger, P.H.2
Tironi, I.G.3
-
24
-
-
58849122630
-
Comparative modeling of thioredoxin glutathione reductase from Schistosoma mansoni: A multifunctional target for antischistosomal therapy
-
Sharma, M., Khanna, S., Bulusu, G., and Mitra, A. 2009. Comparative modeling of thioredoxin glutathione reductase from Schistosoma mansoni: a multifunctional target for antischistosomal therapy. J. Mol. Graphics Model. 27, 665-675.
-
(2009)
J. Mol. Graphics Model.
, vol.27
, pp. 665-675
-
-
Sharma, M.1
Khanna, S.2
Bulusu, G.3
Mitra, A.4
-
26
-
-
33746271105
-
Biomolecular modeling: Goals, problems, perspectives
-
van Gunsteren, W. F., Bakowies, D., Baron, R., et al. 2006. Biomolecular modeling: Goals, problems, perspectives. Angew. Chem. Int. Ed. 45, 4064-4092.
-
(2006)
Angew. Chem. Int. Ed.
, vol.45
, pp. 4064-4092
-
-
Van Gunsteren, W.F.1
Bakowies, D.2
Baron, R.3
-
27
-
-
0037089015
-
Calculation of the free energy of solvation for neutral analogs of amino acid side chains
-
Villa, A., and Mark, A.E. 2002. Calculation of the free energy of solvation for neutral analogs of amino acid side chains. J. Comp. Chem. 2345, 548-553.
-
(2002)
J. Comp. Chem.
, vol.2345
, pp. 548-553
-
-
Villa, A.1
Mark, A.E.2
-
28
-
-
33645590327
-
Graph complexity of chemical compounds in biological pathways
-
Yamaguchi, A., Aoki, K.F., and Mamitsuka, H. 2003. Graph complexity of chemical compounds in biological pathways. Genome Inform. 14, 376-377.
-
(2003)
Genome Inform.
, vol.14
, pp. 376-377
-
-
Yamaguchi, A.1
Aoki, K.F.2
Mamitsuka, H.3
-
29
-
-
77954611371
-
Exploration of the mechanism for LPFFD inhibiting the formation of betasheet conformation of A beta(1-42) in water
-
Yang, C., Zhu, X., Li, J., and Shi, R. 2010. Exploration of the mechanism for LPFFD inhibiting the formation of betasheet conformation of A beta(1-42) in water. J. Mol. Model. 16, 813-21.
-
(2010)
J. Mol. Model.
, vol.16
, pp. 813-821
-
-
Yang, C.1
Zhu, X.2
Li, J.3
Shi, R.4
|