-
1
-
-
14844318349
-
TexMol: Interactive Visual Exploration of Large Flexible Multi-Component Molecular Complexes
-
Oct
-
C. L. Bajaj, P. Djeu, V. Siddavanahalli, and A. Thane. TexMol: Interactive Visual Exploration of Large Flexible Multi-Component Molecular Complexes. In IEEE Visualization, pages 243-250, Oct 2004.
-
(2004)
Visualization
, pp. 243-250
-
-
Bajaj, C.L.1
Djeu, P.2
Siddavanahalli, V.3
Thane, A.4
-
3
-
-
0033954256
-
The Protein Data Bank
-
H. Berman, J. Westbrook, Z. Feng, G. Gilliland, T. Bhat, H. Weissig, I. Shindyalov, and P. Bourne. The Protein Data Bank. Nucleic Acids Research, 28:235-242, 2000.
-
(2000)
Nucleic Acids Research
, vol.28
, pp. 235-242
-
-
Berman, H.1
Westbrook, J.2
Feng, Z.3
Gilliland, G.4
Bhat, T.5
Weissig, H.6
Shindyalov, I.7
Bourne, P.8
-
4
-
-
33847242278
-
Coarsegrained molecular dynamics simulations of membrane proteins and pep-tides
-
P. J. Bond, J. Holyoake, A. Ivetac, S. Khalid, and M. S. Sansom. Coarsegrained molecular dynamics simulations of membrane proteins and pep-tides. Journal of Structural Biology, 157(3):593-605, 2007.
-
(2007)
Journal of Structural Biology
, vol.157
, Issue.3
, pp. 593-605
-
-
Bond, P.J.1
Holyoake, J.2
Ivetac, A.3
Khalid, S.4
Sansom, M.S.5
-
5
-
-
84986512474
-
CHARMM: A program for macromolecular energy minimization, and dynamics calculations
-
B. R. Brooks, R. E. Bruccoleri, B. D. Olafson, D. J. States, S. Swami-nathan, and M. Karplus. CHARMM: A program for macromolecular energy, minimization, and dynamics calculations. J. Comput. Chem., 4(2):187-217, 1983.
-
(1983)
J. Comput. Chem.
, vol.4
, Issue.2
, pp. 187-217
-
-
Brooks, B.R.1
Bruccoleri, R.E.2
Olafson, B.D.3
States, D.J.4
Swami-Nathan, S.5
Karplus, M.6
-
6
-
-
53749107025
-
-
Technical report UCSF
-
D. Case, T. Darden, T. Cheatham, C. Simmerling, J. Wang, R. Duke, R. Luo, K. Merz, D. Pearlman, M. Crowley, R. Walker, W. Zhang, B. Wang, S. Hayik, A. Roitberg, G. Seabra, K. Wong, F. Paesani, X. Wu, S. Brozell, V. Tsui, H. Gohlke, L. Yang, C. Tan, J. Mongan, V. Hornak, G. Cui, P. Beroza, D. Mathews, C. Schafmeister, W. Ross, and P. Koll-man. AMBER 9. Technical report, UCSF, 2006.
-
(2006)
AMBER
, vol.9
-
-
Case, D.1
Darden, T.2
Cheatham, T.3
Simmerling, C.4
Wang, J.5
Duke, R.6
Luo, R.7
Merz, K.8
Pearlman, D.9
Crowley, M.10
Walker, R.11
Zhang, W.12
Wang, B.13
Hayik, S.14
Roitberg, A.15
Seabra, G.16
Wong, K.17
Paesani, F.18
Wu, X.19
Brozell, S.20
Tsui, V.21
Gohlke, H.22
Yang, L.23
Tan, C.24
Mongan, J.25
Hornak, V.26
Cui, G.27
Beroza, P.28
Mathews, D.29
Schafmeister, C.30
Ross, W.31
Koll-Man, P.32
more..
-
7
-
-
52049102653
-
MetaMol: High quality visualization of Molecular Skin Surface
-
M. Chavent, B. Lévy, and B. Maigret. MetaMol: High quality visualization of Molecular Skin Surface. Journal of Molecular Graphics and Modelling, 27(2):209-216, 2008
-
(2008)
Journal of Molecular Graphics and Modelling
, vol.27
, Issue.2
, pp. 209-216
-
-
Chavent, M.1
Lévy, B.2
Maigret, B.3
-
8
-
-
0000538815
-
Analytical Molecular Surface Calculation
-
M. L. Connolly. Analytical Molecular Surface Calculation. J. Appl. Cryst., 16:548-558, 1983.
-
(1983)
J. Appl. Cryst.
, vol.16
, pp. 548-558
-
-
Connolly, M.L.1
-
10
-
-
38149019259
-
Iterative Methods for Visualization of Implicit Surfaces on GPU
-
Nov
-
R. de Toledo, B. Lévy, and J.-C. Paul. Iterative Methods for Visualization of Implicit Surfaces on GPU. In ISVC, International Symposium on Visual Computing, pages 598-609, Nov 2007.
-
(2007)
ISVC, International Symposium on Visual Computing
, pp. 598-609
-
-
De Toledo, R.1
Lévy, B.2
Paul, J.-C.3
-
13
-
-
0028259338
-
Three-dimensional alpha shapes
-
H. Edelsbrunner and E. P. Mücke. Three-dimensional alpha shapes. ACM Trans. Graph., 13(1):43-72, 1994.
-
(1994)
ACM Trans. Graph.
, vol.13
, Issue.1
, pp. 43-72
-
-
Edelsbrunner, H.1
Mücke, E.P.2
-
15
-
-
4143051469
-
Splatting Illuminated Ellipsoids with Depth Correction
-
S. Gumhold. Splatting Illuminated Ellipsoids with Depth Correction. In Proceedings of VMV, pages 245-252, 2003.
-
(2003)
Proceedings of VMV
, pp. 245-252
-
-
Gumhold, S.1
-
17
-
-
28844484671
-
Solving Quartics and Cubics for Graphics
-
A. W. Paeth, editor 1. edition
-
D. Herbison-Evans. Solving Quartics and Cubics for Graphics. In A. W. Paeth, editor, Graphics Gems V, pages 3-15. 1. edition, 1995.
-
(1995)
Graphics Gems v
, pp. 3-15
-
-
Herbison-Evans, D.1
-
19
-
-
84893482610
-
A solution for the best rotation to relate two sets of vectors
-
Sep
-
W. Kabsch. A solution for the best rotation to relate two sets of vectors. Acta Crystallographica Section A, 32(5):922-923, Sep 1976.
-
(1976)
Acta Crystallographica Section A
, vol.32
, Issue.5
, pp. 922-923
-
-
Kabsch, W.1
-
20
-
-
42949101966
-
GPU-based Fast Ray Casting for a Large Number of Metaballs
-
Y. Kanamori, Z. Szego, and T. Nishita. GPU-based Fast Ray Casting for a Large Number of Metaballs. Computer Graphics Forum, 27(3):351-360, 2008.
-
(2008)
Computer Graphics Forum
, vol.27
, Issue.3
, pp. 351-360
-
-
Kanamori, Y.1
Szego, Z.2
Nishita, T.3
-
21
-
-
84962550674
-
Illustrating Magnetic Field Lines using a Discrete Particle Model
-
T. Klein and T. Ertl. Illustrating Magnetic Field Lines using a Discrete Particle Model. In Proceedings of VMV, pages 387-394, 2004.
-
(2004)
Proceedings of VMV
, pp. 387-394
-
-
Klein, T.1
Ertl, T.2
-
23
-
-
77953977263
-
Real-Time GPU Rendering of Piecewise Algebraic Surfaces
-
C. Loop and J. Blinn. Real-Time GPU Rendering of Piecewise Algebraic Surfaces. ACM Trans. Graph., 25(3):664-670, 2006.
-
(2006)
ACM Trans. Graph.
, vol.25
, Issue.3
, pp. 664-670
-
-
Loop, C.1
Blinn, J.2
-
24
-
-
35948956847
-
Image enhancement by unsharp masking the depth buffer
-
T. Luft, C. Colditz, and O. Deussen. Image enhancement by unsharp masking the depth buffer. ACM Trans. Graph., 25(3):1206-1213, 2006.
-
(2006)
ACM Trans. Graph.
, vol.25
, Issue.3
, pp. 1206-1213
-
-
Luft, T.1
Colditz, C.2
Deussen, O.3
-
27
-
-
75449110689
-
Image-Space GPU Metaballs for Time-Dependent Particle Data Sets
-
C. Müller, S. Grottel, and T. Ertl. Image-Space GPU Metaballs for Time-Dependent Particle Data Sets. In Proceedings of VMV, pages 31-40, 2007.
-
(2007)
Proceedings of VMV
, pp. 31-40
-
-
Müller, C.1
Grottel, S.2
Ertl, T.3
-
28
-
-
84986462300
-
MSEED: A Program for the Rapid Ana lytical Determination of Accessible Surface Areas and Their Derivatives
-
G. Perrot, B. Cheng, K. D. Gibson, J. Vila, K. A. Palmer, A. Nayeem, B. Maigret, and H. A. Scheraga. MSEED: A Program for the Rapid Ana lytical Determination of Accessible Surface Areas and Their Derivatives. J. Comput. Chem., 13(1):1-11, 1992.
-
(1992)
J. Comput. Chem.
, vol.13
, Issue.1
, pp. 1-11
-
-
Perrot, G.1
Cheng, B.2
Gibson, K.D.3
Vila, J.4
Palmer, K.A.5
Nayeem, A.6
Maigret, B.7
Scheraga, H.A.8
-
29
-
-
4444221565
-
UCSF Chimera-a visualization system for exploratory research and analysis
-
Oct
-
E. F. Pettersen, T. D. Goddard, C. C. Huang, G. S. Couch, D. M. Green-blatt, E. C. Meng, and T. E. Ferrin. UCSF Chimera-a visualization system for exploratory research and analysis. J. Comput. Chem., 25(13):1605-1612, Oct 2004.
-
(2004)
J. Comput. Chem.
, vol.25
, Issue.13
, pp. 1605-1612
-
-
Pettersen, E.F.1
Goddard, T.D.2
Huang, C.C.3
Couch, G.S.4
Green-Blatt, D.M.5
Meng, E.C.6
Ferrin, T.E.7
-
30
-
-
27344436659
-
Scalable molecular dynamics with NAMD
-
J. C. Phillips, R. Braun, W. Wang, J. Gumbart, E. Tajkhorshid, E. Villa, C. Chipot, R. D. Skeel, L. Kalé, and K. Schulten. Scalable molecular dynamics with NAMD. J. Comput. Chem., 26(16):1781-1802, 2005.
-
(2005)
J. Comput. Chem.
, vol.26
, Issue.16
, pp. 1781-1802
-
-
Phillips, J.C.1
Braun, R.2
Wang, W.3
Gumbart, J.4
Tajkhorshid, E.5
Villa, E.6
Chipot, C.7
Skeel, R.D.8
Kalé, L.9
Schulten, K.10
-
31
-
-
34247372167
-
Hardware-Accelerated Glyphs for Mono-and Dipoles in Molecular Dynamics Visualization
-
G. Reina and T. Ertl. Hardware-Accelerated Glyphs for Mono-and Dipoles in Molecular Dynamics Visualization. In EuroVis05: IEEE VGTC Symposium on Visualization, pages 177-182, 2005.
-
(2005)
EuroVis05: IEEE VGTC Symposium on Visualization
, pp. 177-182
-
-
Reina, G.1
Ertl, T.2
-
32
-
-
0017429069
-
Areas, Volumes Packing, and Protein Structure
-
F. M. Richards. Areas, Volumes, Packing, and Protein Structure. Annual Review of Biophysics and Bioengineering, 6(1):151-176, 1977.
-
(1977)
Annual Review of Biophysics and Bioengineering
, vol.6
, Issue.1
, pp. 151-176
-
-
Richards, F.M.1
-
33
-
-
36448970902
-
Molecular surfaces on proteins via beta shapes
-
J. Ryu, R. Park, and D.-S. Kim. Molecular surfaces on proteins via beta shapes. Computer-Aided Design, 39(12):1042-1057, 2007.
-
(2007)
Computer-Aided Design
, vol.39
, Issue.12
, pp. 1042-1057
-
-
Ryu, J.1
Park, R.2
Kim, D.-S.3
-
35
-
-
0031300887
-
Real time surface reconstruction for moving molecular fragments
-
M. F. Sanner and A. J. Olson. Real time surface reconstruction for moving molecular fragments. In Pacific Symposium on Biocomputing '97, pages 385-396, 1997.
-
(1997)
Pacific Symposium on Biocomputing' 97
, pp. 385-396
-
-
Sanner, M.F.1
Olson, A.J.2
-
36
-
-
0030040323
-
Reduced Surface: An Efficient Way to Compute Molecular Surfaces
-
Dec
-
M. F. Sanner, A. J. Olson, and J.-C. Spehner. Reduced Surface: An Efficient Way to Compute Molecular Surfaces. Biopolymers, 38(3):305-320, Dec 1996.
-
(1996)
Biopolymers
, vol.38
, Issue.3
, pp. 305-320
-
-
Sanner, M.F.1
Olson, A.J.2
Spehner, J.-C.3
-
37
-
-
34547713522
-
GPU-Based Ray-Casting of Quadratic Surfaces
-
C. Sigg, T. Weyrich, M. Botsch, and M. Gross. GPU-Based Ray-Casting of Quadratic Surfaces. In Eurographics Symposium on Point-Based Graphics, pages 59-65, 2006.
-
(2006)
Eurographics Symposium on Point-Based Graphics
, pp. 59-65
-
-
Sigg, C.1
Weyrich, T.2
Botsch, M.3
Gross, M.4
-
39
-
-
33845621535
-
Ambient Occlusion and Edge Cueing for Enhancing Real Time Molecular Visualization
-
M. Tarini, P. Cignoni, and C. Montani. Ambient Occlusion and Edge Cueing for Enhancing Real Time Molecular Visualization. IEEE Transactions on Visualization and Computer Graphics, 12(5):1237-1244, 2006.
-
(2006)
Transactions on Visualization and Computer Graphics
, vol.12
, Issue.5
, pp. 1237-1244
-
-
Tarini, M.1
Cignoni, P.2
Montani, C.3
-
40
-
-
0029968922
-
The Contour-Buildup Algorithm to Calculate the Analytical Molecular Surface
-
M. Totrov and R. Abagyan. The Contour-Buildup Algorithm to Calculate the Analytical Molecular Surface. Journal of Structural Biology, 116:138-143, 1995.
-
(1995)
Journal of Structural Biology
, vol.116
, pp. 138-143
-
-
Totrov, M.1
Abagyan, R.2
-
41
-
-
0028514996
-
Linearly Scalable Computation of Smooth Molecular Surfaces
-
A. Varshney, F. P. Brooks, and W. V. Wright. Linearly Scalable Computation of Smooth Molecular Surfaces. IEEE Computer Graphics and Applications, 14(5):19-25, 1994.
-
(1994)
Computer Graphics and Applications
, vol.14
, Issue.5
, pp. 19-25
-
-
Varshney, A.1
Brooks, F.P.2
Wright, W.V.3
|