-
2
-
-
0037704499
-
A new paradigm for parallel adaptive meshing algorithms
-
Bank R., and Holst M. A new paradigm for parallel adaptive meshing algorithms. SIAM Rev. 45 (2003) 291-323
-
(2003)
SIAM Rev.
, vol.45
, pp. 291-323
-
-
Bank, R.1
Holst, M.2
-
3
-
-
0003453865
-
-
Wiley, IEEE, New York
-
Huebner K.H., Dewhirst D., Smith D.E., and Byrom T.G. The Finite Element Method for Engineers (2001), Wiley, IEEE, New York
-
(2001)
The Finite Element Method for Engineers
-
-
Huebner, K.H.1
Dewhirst, D.2
Smith, D.E.3
Byrom, T.G.4
-
4
-
-
0017429069
-
Areas, volumes, packing, and protein structure
-
Richards F.M. Areas, volumes, packing, and protein structure. Ann. Rev. Biophys. Bioeng. 6 (1977) 151-156
-
(1977)
Ann. Rev. Biophys. Bioeng.
, vol.6
, pp. 151-156
-
-
Richards, F.M.1
-
5
-
-
0000747830
-
A Gaussian description of molecular shape
-
Grant J.A., and Pickup B.T. A Gaussian description of molecular shape. J. Phys. Chem. 99 (1995) 3503-3510
-
(1995)
J. Phys. Chem.
, vol.99
, pp. 3503-3510
-
-
Grant, J.A.1
Pickup, B.T.2
-
6
-
-
0000538815
-
Analytical molecular surface calculation
-
Connolly M.L. Analytical molecular surface calculation. J. Appl. Cryst. 16 (1983) 548-558
-
(1983)
J. Appl. Cryst.
, vol.16
, pp. 548-558
-
-
Connolly, M.L.1
-
7
-
-
0015222647
-
The interpretation of protein structures: estimation of static accessibility
-
Lee B., and Richards F.M. The interpretation of protein structures: estimation of static accessibility. J. Mol. Biol. 55 (1971) 379-400
-
(1971)
J. Mol. Biol.
, vol.55
, pp. 379-400
-
-
Lee, B.1
Richards, F.M.2
-
8
-
-
0029968922
-
The contour-buildup algorithm to calculate the analytical molecular surface
-
Totrov M., and Abagyan R. The contour-buildup algorithm to calculate the analytical molecular surface. J. Struct. Biol. 116 (1996) 138-143
-
(1996)
J. Struct. Biol.
, vol.116
, pp. 138-143
-
-
Totrov, M.1
Abagyan, R.2
-
9
-
-
0030040323
-
Reduced surface: an efficient way to compute molecular surfaces
-
Sanner M.F., Olson A.J., and Spehner J.C. Reduced surface: an efficient way to compute molecular surfaces. Biopolymers 38 (1996) 305-320
-
(1996)
Biopolymers
, vol.38
, pp. 305-320
-
-
Sanner, M.F.1
Olson, A.J.2
Spehner, J.C.3
-
10
-
-
74349114123
-
A generalization of algebraic surface drawing
-
Blinn J.F. A generalization of algebraic surface drawing. ACM Trans. Graphics 1 (1982) 235-256
-
(1982)
ACM Trans. Graphics
, vol.1
, pp. 235-256
-
-
Blinn, J.F.1
-
11
-
-
0027551882
-
Shape analysis of molecular surfaces
-
Duncan B.S., and Olson A.J. Shape analysis of molecular surfaces. Biopolymers 33 (1993) 231-238
-
(1993)
Biopolymers
, vol.33
, pp. 231-238
-
-
Duncan, B.S.1
Olson, A.J.2
-
13
-
-
0033954256
-
The protein data bank
-
Berman H.M., Westbrook J., Feng Z., Gilliland G., Bhat T.N., Weissig H., et al. The protein data bank. Nucl. Acids Res. 28 (2000) 235-242
-
(2000)
Nucl. 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
-
14
-
-
48949114245
-
-
H. Si, TetGen: a quality tetrahedral mesh generator and three-dimensional Delaunay triangulator, Technical Report 9, Weierstrass Institute for Applied Analysis and Stochastics (software downloading: http://tetgen.berlios.de), 2004.
-
H. Si, TetGen: a quality tetrahedral mesh generator and three-dimensional Delaunay triangulator, Technical Report 9, Weierstrass Institute for Applied Analysis and Stochastics (software downloading: http://tetgen.berlios.de), 2004.
-
-
-
-
19
-
-
0023381475
-
Marching cubes: a high resolution 3D surface construction algorithm
-
Lorensen W.E., and Cline H.E. Marching cubes: a high resolution 3D surface construction algorithm. Comput. Graphics 21 (1987) 163-169
-
(1987)
Comput. Graphics
, vol.21
, pp. 163-169
-
-
Lorensen, W.E.1
Cline, H.E.2
-
21
-
-
0141976322
-
Analysis of triangle quality measures
-
Pebay P.P., and Baker T.J. Analysis of triangle quality measures. Math. Comput. 72 244 (2003) 1817-1839
-
(2003)
Math. Comput.
, vol.72
, Issue.244
, pp. 1817-1839
-
-
Pebay, P.P.1
Baker, T.J.2
-
22
-
-
0031277193
-
Tetrahedral mesh improvement using swapping and smoothing
-
Freitag L.A., and Ollivier-Gooch C.F. Tetrahedral mesh improvement using swapping and smoothing. Int. J. Numer. Methods Eng. 40 (1997) 3979-4002
-
(1997)
Int. J. Numer. Methods Eng.
, vol.40
, pp. 3979-4002
-
-
Freitag, L.A.1
Ollivier-Gooch, C.F.2
-
23
-
-
0345414562
-
An improved algorithm for anisotropic nonlinear diffusion for denoising cryotomograms
-
Fernandez J.-J., and Li S. An improved algorithm for anisotropic nonlinear diffusion for denoising cryotomograms. J. Struct. Biol. 144 (2003) 152-161
-
(2003)
J. Struct. Biol.
, vol.144
, pp. 152-161
-
-
Fernandez, J.-J.1
Li, S.2
-
25
-
-
78649875043
-
A structure tensor approach for 3D image skeletonization: applications in protein secondary structural analysis
-
Yu Z., and Bajaj C. A structure tensor approach for 3D image skeletonization: applications in protein secondary structural analysis. Proceedings of IEEE International Conference on Image Processing (2006) 2513-2516
-
(2006)
Proceedings of IEEE International Conference on Image Processing
, pp. 2513-2516
-
-
Yu, Z.1
Bajaj, C.2
-
26
-
-
55949096418
-
-
Z. Yu, C. Bajaj, Computational approaches for automatic structural analysis of large bio-molecular complexes, IEEE/ACM Trans. Comput. Biol. Bioinfor. (2007), in press, doi:ieeecomputersociety.org/10.1109/TCBB.2007.70226.
-
Z. Yu, C. Bajaj, Computational approaches for automatic structural analysis of large bio-molecular complexes, IEEE/ACM Trans. Comput. Biol. Bioinfor. (2007), in press, doi:ieeecomputersociety.org/10.1109/TCBB.2007.70226.
-
-
-
-
29
-
-
0029179430
-
A signal processing approach to fair surface design
-
Taubin G. A signal processing approach to fair surface design. Proceedings of SIGGRAPH'95 (1995) 351-358
-
(1995)
Proceedings of SIGGRAPH'95
, pp. 351-358
-
-
Taubin, G.1
-
32
-
-
21244472981
-
A sharpness dependent filter for mesh smoothing
-
Chena C.-Y., and Cheng K.-Y. A sharpness dependent filter for mesh smoothing. Comput Aided Geometric Des. 22 (2005) 376-391
-
(2005)
Comput Aided Geometric Des.
, vol.22
, pp. 376-391
-
-
Chena, C.-Y.1
Cheng, K.-Y.2
-
36
-
-
0025465145
-
Scale-space and edge detection using anisotropic diffusion
-
Perona P., and Malik J. Scale-space and edge detection using anisotropic diffusion. IEEE Trans. Pattern Anal. Mach. Intell. 12 (1990) 629-639
-
(1990)
IEEE Trans. Pattern Anal. Mach. Intell.
, vol.12
, pp. 629-639
-
-
Perona, P.1
Malik, J.2
-
38
-
-
33947372106
-
Continuum simulations of acetylcholine diffusion with reaction-determined boundaries in neuromuscular junction models
-
Cheng Y.H., Suen J.K., Radić Z., Bond S.D., Holst M.J., and McCmmon J.A. Continuum simulations of acetylcholine diffusion with reaction-determined boundaries in neuromuscular junction models. Biophys. Chem. 127 (2007) 129-139
-
(2007)
Biophys. Chem.
, vol.127
, pp. 129-139
-
-
Cheng, Y.H.1
Suen, J.K.2
Radić, Z.3
Bond, S.D.4
Holst, M.J.5
McCmmon, J.A.6
-
39
-
-
0037381791
-
Finite element simulations of acetylcholine diffusion in neuromuscular junctions
-
Tai K.S., Bond S.D., Macmillan H.R., Baker N.A., Holst M.J., and McCammon J.A. Finite element simulations of acetylcholine diffusion in neuromuscular junctions. Biophys. J. 84 (2003) 2234-2241
-
(2003)
Biophys. J.
, vol.84
, pp. 2234-2241
-
-
Tai, K.S.1
Bond, S.D.2
Macmillan, H.R.3
Baker, N.A.4
Holst, M.J.5
McCammon, J.A.6
-
40
-
-
60749121544
-
Patient specific heart models from high resolution CT
-
Bajaj C.L., Goswami S., Yu Z., Zhang Y., Bazilevs Y., and Hughes T. Patient specific heart models from high resolution CT. Proceedings of International Conference Symposium on Computational Modeling of Objects Represented in Images (CompIMAGE), Portugal (2006)
-
(2006)
Proceedings of International Conference Symposium on Computational Modeling of Objects Represented in Images (CompIMAGE), Portugal
-
-
Bajaj, C.L.1
Goswami, S.2
Yu, Z.3
Zhang, Y.4
Bazilevs, Y.5
Hughes, T.6
-
41
-
-
84966233568
-
Multi-level adaptive solutions to boundary-value problems
-
Brandt A. Multi-level adaptive solutions to boundary-value problems. Math. Comput. 31 (1977) 333-390
-
(1977)
Math. Comput.
, vol.31
, pp. 333-390
-
-
Brandt, A.1
-
44
-
-
0004185470
-
-
Society for Industrial and Applied Mathematics, Philadelphia, PA
-
Briggs W.L., Henson V.E., and McCormick S.F. A Multigrid Tutorial. second ed. (2000), Society for Industrial and Applied Mathematics, Philadelphia, PA
-
(2000)
A Multigrid Tutorial. second ed.
-
-
Briggs, W.L.1
Henson, V.E.2
McCormick, S.F.3
-
46
-
-
0037145312
-
Evaluation of three unstructured multigrid methods on 3D finite element problems in solid mechanics
-
Adams M. Evaluation of three unstructured multigrid methods on 3D finite element problems in solid mechanics. Int. J. Numer. Methods Eng. 55 (2002) 519-534
-
(2002)
Int. J. Numer. Methods Eng.
, vol.55
, pp. 519-534
-
-
Adams, M.1
-
47
-
-
34547323661
-
Optimality of multilevel preconditioners for local mesh refinement in three dimensions
-
Aksoylu B., and Holst M. Optimality of multilevel preconditioners for local mesh refinement in three dimensions. SIAM J. Numer. Anal. 44 (2006) 1005-1025
-
(2006)
SIAM J. Numer. Anal.
, vol.44
, pp. 1005-1025
-
-
Aksoylu, B.1
Holst, M.2
-
48
-
-
2342617546
-
An Odyssey into local refinement and multilevel preconditioning III: implementation and numerical experiments
-
Aksoylu B., Bond S., and Holst M. An Odyssey into local refinement and multilevel preconditioning III: implementation and numerical experiments. SIAM J. Sci. Comput. 25 (2003) 478-498
-
(2003)
SIAM J. Sci. Comput.
, vol.25
, pp. 478-498
-
-
Aksoylu, B.1
Bond, S.2
Holst, M.3
-
49
-
-
0036982605
-
An algebraic multilevel multigraph algorithm
-
Bank R.E., and Smith R.K. An algebraic multilevel multigraph algorithm. SIAM J. Sci. Comput. 23 (2002) 1572-1592
-
(2002)
SIAM J. Sci. Comput.
, vol.23
, pp. 1572-1592
-
-
Bank, R.E.1
Smith, R.K.2
-
50
-
-
0035566962
-
Adaptive numerical treatment of elliptic systems on manifolds
-
Holst M. Adaptive numerical treatment of elliptic systems on manifolds. Adv. Comput. Math. 15 (2001) 139-191
-
(2001)
Adv. Comput. Math.
, vol.15
, pp. 139-191
-
-
Holst, M.1
-
51
-
-
0035964342
-
Electrostatics of nanosystems: application to microtubules and the ribosome
-
Baker N.A., Sept D., Joseph S., Holst M., and McCammon J.A. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. 98 (2001) 10037-10041
-
(2001)
Proc. Natl. Acad. Sci.
, vol.98
, pp. 10037-10041
-
-
Baker, N.A.1
Sept, D.2
Joseph, S.3
Holst, M.4
McCammon, J.A.5
-
52
-
-
34247897215
-
Finite element analysis of the time-dependent Smoluchowski equation for acetylcholinesterase reaction rate calculations
-
Cheng Y.H., Suen J.K., Zhang D.Q., Bond S.D., Zhang Y.J., Song Y.H., Baker N.A., Bajaj C.L., Holst M.J., and McCammon J.A. Finite element analysis of the time-dependent Smoluchowski equation for acetylcholinesterase reaction rate calculations. Biophys. J. 92 (2007) 3397-3406
-
(2007)
Biophys. J.
, vol.92
, pp. 3397-3406
-
-
Cheng, Y.H.1
Suen, J.K.2
Zhang, D.Q.3
Bond, S.D.4
Zhang, Y.J.5
Song, Y.H.6
Baker, N.A.7
Bajaj, C.L.8
Holst, M.J.9
McCammon, J.A.10
-
53
-
-
1942519782
-
Finite element solution of the steady-state Smoluchowski equation for rate constant calculations
-
Song Y., Zhang Y., Shen T., Bajaj C.L., McCammon J.A., and Baker N.A. Finite element solution of the steady-state Smoluchowski equation for rate constant calculations. Biophys. J. 86 (2004) 2017-2029
-
(2004)
Biophys. J.
, vol.86
, pp. 2017-2029
-
-
Song, Y.1
Zhang, Y.2
Shen, T.3
Bajaj, C.L.4
McCammon, J.A.5
Baker, N.A.6
|