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Volumn , Issue , 2012, Pages 115-122

Implicit surfaces for interactive graph based cavity analysis of molecular simulations

Author keywords

I.3.4 Computer Graphics : Computational Geometry and Object Modeling Boundary representations, Curve, surface, solid and object representations; J.3 Computer Applications : Life and Medical Sciences Biology and Genetics

Indexed keywords

3D VISUALIZATION; COMPUTATIONAL GEOMETRY AND OBJECT MODELING; GRAPH ALGORITHMS; GRAPH PARAMETERS; GRAPH-BASED; IMPLICIT FUNCTION; IMPLICIT REPRESENTATION; IMPLICIT SURFACES; LIFE AND MEDICAL SCIENCE; LINKED VIEWS; MOLECULAR SIMULATIONS; MOLECULAR SURFACES; NOVEL TECHNIQUES; POTENTIAL BINDING SITES; SAMPLING STRATEGIES; VISUAL IDENTIFICATION;

EID: 84872239641     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1109/BioVis.2012.6378601     Document Type: Conference Paper
Times cited : (18)

References (36)
  • 1
    • 74349114123 scopus 로고
    • A generalization of algebraic surface drawing
    • J. Blinn. A generalization of algebraic surface drawing. ACM Transactions on Graphics, 1:235-256, 1982.
    • (1982) ACM Transactions on Graphics , vol.1 , pp. 235-256
    • Blinn, J.1
  • 2
    • 58849142521 scopus 로고    scopus 로고
    • Finding and characterizing tunnels in macromolecules with application to ion channels and pores
    • R. Coleman and K. Sharp. Finding and characterizing tunnels in macromolecules with application to ion channels and pores. Biophysical journal, 96(2):632-645, 2009.
    • (2009) Biophysical Journal , vol.96 , Issue.2 , pp. 632-645
    • Coleman, R.1    Sharp, K.2
  • 3
    • 0000538815 scopus 로고
    • Analytical molecular surface calculation
    • M. Connolly. Analytical molecular surface calculation. Journal of Applied Crystallography, 16(5):548-558, 1983.
    • (1983) Journal of Applied Crystallography , vol.16 , Issue.5 , pp. 548-558
    • Connolly, M.1
  • 5
    • 84872226558 scopus 로고    scopus 로고
    • Interactive image-space volume visualization for dynamic particle simulations
    • Linköping University Electronic Press
    • M. Falk, S. Grottel, and T. Ertl. Interactive image-space volume visualization for dynamic particle simulations. In Proceedings of The Annual SIGRAD Conference, pages 35-43. Linköping University Electronic Press, 2010.
    • (2010) Proceedings of the Annual SIGRAD Conference , pp. 35-43
    • Falk, M.1    Grottel, S.2    Ertl, T.3
  • 7
    • 0041813144 scopus 로고    scopus 로고
    • Colorbrewer.org: An online tool for selecting colour schemes for maps
    • M. Harrower and C. Brewer. Colorbrewer.org: An online tool for selecting colour schemes for maps. Cartographic Journal, pages 27-37, 2003.
    • (2003) Cartographic Journal , pp. 27-37
    • Harrower, M.1    Brewer, C.2
  • 8
    • 0030384948 scopus 로고
    • Sphere tracing: A geometric method for the antialiased ray tracing of implicit surfaces
    • J. C. Hart. Sphere tracing: A geometric method for the antialiased ray tracing of implicit surfaces. The Visual Computer, 12:527-545, 1994.
    • (1994) The Visual Computer , vol.12 , pp. 527-545
    • Hart, J.C.1
  • 10
    • 60849088003 scopus 로고    scopus 로고
    • Fast Ray Tracing of Arbitrary Implicit Surfaces with Interval and Affine Arithmetic
    • Mar.
    • A. Knoll, Y. Hijazi, A. Kensler, M. Schott, C. Hansen, and H. Hagen. Fast Ray Tracing of Arbitrary Implicit Surfaces with Interval and Affine Arithmetic. Computer Graphics Forum, 28(1):26-40, Mar. 2009.
    • (2009) Computer Graphics Forum , vol.28 , Issue.1 , pp. 26-40
    • Knoll, A.1    Hijazi, Y.2    Kensler, A.3    Schott, M.4    Hansen, C.5    Hagen, H.6
  • 14
    • 84860694891 scopus 로고    scopus 로고
    • Interactive Exploration of Protein Cavities
    • M. Krone, M. Falk, and S. Rehm. Interactive Exploration of Protein Cavities. Computer Graphics Forum, 30(3):673-682, 2011.
    • (2011) Computer Graphics Forum , vol.30 , Issue.3 , pp. 673-682
    • Krone, M.1    Falk, M.2    Rehm, S.3
  • 15
    • 70350674995 scopus 로고
    • On the shortest spanning subtree of a graph and the traveling salesman problem
    • J. B. Kruskal. On the shortest spanning subtree of a graph and the traveling salesman problem. Proceedings of the American Mathematical Society, 7(1):48-50, 1956.
    • (1956) Proceedings of the American Mathematical Society , vol.7 , Issue.1 , pp. 48-50
    • Kruskal, J.B.1
  • 16
    • 0015222647 scopus 로고
    • The interpretation of protein structures: Estimation of static accessibility
    • Feb.
    • B. Lee and F. M. Richards. The interpretation of protein structures: estimation of static accessibility. Journal of molecular biology, 55(3):379-400, Feb. 1971.
    • (1971) Journal of Molecular Biology , vol.55 , Issue.3 , pp. 379-400
    • Lee, B.1    Richards, F.M.2
  • 17
    • 0031687653 scopus 로고    scopus 로고
    • Anatomy of protein pockets and cavities: Measurement of binding site geometry and implications for ligand design
    • J. Liang, H. Edelsbrunner, and C. Woodward. Anatomy of protein pockets and cavities: measurement of binding site geometry and implications for ligand design. Protein Science, 7:1884-1897, 1998.
    • (1998) Protein Science , vol.7 , pp. 1884-1897
    • Liang, J.1    Edelsbrunner, H.2    Woodward, C.3
  • 18
    • 80855130019 scopus 로고    scopus 로고
    • Voronoi-based extraction and visualization of molecular paths
    • N. Lindow, D. Baum, and H.-C. Hege. Voronoi-based extraction and visualization of molecular paths. IEEE Trans. Vis. Comput. Graph., 17(12):2025-2034, 2011.
    • (2011) IEEE Trans. Vis. Comput. Graph. , vol.17 , Issue.12 , pp. 2025-2034
    • Lindow, N.1    Baum, D.2    Hege, H.-C.3
  • 19
    • 77955729034 scopus 로고    scopus 로고
    • Accelerated Visualization of Dynamic Molecular Surfaces
    • Wiley Online Library
    • N. Lindow, D. Baum, S. Prohaska, and H.-C. Hege. Accelerated Visualization of Dynamic Molecular Surfaces. In Computer Graphics Forum, volume 29, pages 943-952. Wiley Online Library, 2010.
    • (2010) Computer Graphics Forum , vol.29 , pp. 943-952
    • Lindow, N.1    Baum, D.2    Prohaska, S.3    Hege, H.-C.4
  • 20
    • 0023381475 scopus 로고
    • Marching cubes: A high resolution 3d surface construction algorithm
    • August
    • W. E. Lorensen and H. E. Cline. Marching cubes: A high resolution 3d surface construction algorithm. SIGGRAPH Comput. Graph., 21:163-169, August 1987.
    • (1987) SIGGRAPH Comput. Graph. , vol.21 , pp. 163-169
    • Lorensen, W.E.1    Cline, H.E.2
  • 21
    • 33749262631 scopus 로고    scopus 로고
    • Image enhancement by unsharp masking the depth buffer
    • jul
    • T. Luft, C. Colditz, and O. Deussen. Image enhancement by unsharp masking the depth buffer. ACM Transactions on Graphics, 25(3):1206-1213, jul 2006.
    • (2006) ACM Transactions on Graphics , vol.25 , Issue.3 , pp. 1206-1213
    • Luft, T.1    Colditz, C.2    Deussen, O.3
  • 24
    • 0029479473 scopus 로고
    • Function representation in geometric modeling: Concepts, implementation and applications
    • A. Pasko, V. Adzhiev, A. Sourin, and V. V. Savchenko. Function representation in geometric modeling: concepts, implementation and applications. The Visual Computer, 11(8):429-446, 1995.
    • (1995) The Visual Computer , vol.11 , Issue.8 , pp. 429-446
    • Pasko, A.1    Adzhiev, V.2    Sourin, A.3    Savchenko, V.V.4
  • 25
    • 68249097450 scopus 로고    scopus 로고
    • Porewalker: A novel tool for the identification and characterization of channels in transmembrane proteins from their three-dimensional structure
    • M. Pellegrini-Calace, T. Maiwald, and J. Thornton. Porewalker: a novel tool for the identification and characterization of channels in transmembrane proteins from their three-dimensional structure. PLoS computational biology, 5(7):e1000440, 2009.
    • (2009) PLoS Computational Biology , vol.5 , Issue.7
    • Pellegrini-Calace, M.1    Maiwald, T.2    Thornton, J.3
  • 26
    • 35748972048 scopus 로고    scopus 로고
    • Mole: A voronoi diagram-based explorer of molecular channels, pores, and tunnels
    • M. Petřek, P. Kosinová, J. Koca, and M. Otyepka. Mole: a voronoi diagram-based explorer of molecular channels, pores, and tunnels. Structure, 15(11):1357-1363, 2007.
    • (2007) Structure , vol.15 , Issue.11 , pp. 1357-1363
    • Petřek, M.1    Kosinová, P.2    Koca, J.3    Otyepka, M.4
  • 28
    • 79955795138 scopus 로고    scopus 로고
    • dxtuber: Detecting protein cavities, tunnels and clefts based on protein and solvent dynamics
    • M. Raunest and C. Kandt. dxtuber: Detecting protein cavities, tunnels and clefts based on protein and solvent dynamics. Journal of Molecular Graphics and Modelling, 29(7):895-905, 2011.
    • (2011) Journal of Molecular Graphics and Modelling , vol.29 , Issue.7 , pp. 895-905
    • Raunest, M.1    Kandt, C.2
  • 29
    • 0000397256 scopus 로고
    • A constructive geometry for computer graphics
    • A. Ricci. A constructive geometry for computer graphics. The Computer Journal, 16(2):157-160, 1972.
    • (1972) The Computer Journal , vol.16 , Issue.2 , pp. 157-160
    • Ricci, A.1
  • 31
    • 0032652648 scopus 로고    scopus 로고
    • Kernel functions in convolution surfaces: A comparative analysis
    • A. Sherstyuk. Kernel functions in convolution surfaces: a comparative analysis. The Visual Computer, 15(4):171-182, 1999.
    • (1999) The Visual Computer , vol.15 , Issue.4 , pp. 171-182
    • Sherstyuk, A.1
  • 33
    • 0030404988 scopus 로고    scopus 로고
    • Hole: A program for the analysis of the pore dimensions of ion channel structural models
    • O. Smart, J. Neduvelil, X.Wang, B.Wallace, and M. Sansom. Hole: a program for the analysis of the pore dimensions of ion channel structural models. Journal of molecular graphics, 14(6):354-360, 1996.
    • (1996) Journal of Molecular Graphics , vol.14 , Issue.6 , pp. 354-360
    • Smart, O.1    Neduvelil, J.2    Wang, X.3    Wallace, B.4    Sansom, M.5
  • 34
    • 77951214658 scopus 로고    scopus 로고
    • Mcvol - A program for calculating protein volumes and identifying cavities by a monte carlo algorithm
    • M. Till and G. Ullmann. Mcvol-a program for calculating protein volumes and identifying cavities by a monte carlo algorithm. Journal of molecular modeling, 16(3):419-429, 2010.
    • (2010) Journal of Molecular Modeling , vol.16 , Issue.3 , pp. 419-429
    • Till, M.1    Ullmann, G.2
  • 35
    • 77954262905 scopus 로고    scopus 로고
    • 3v: Cavity, channel and cleft volume calculator and extractor
    • N. Voss and M. Gerstein. 3v: cavity, channel and cleft volume calculator and extractor. Nucleic acids research, 38(suppl 2):W555-W562, 2010.
    • (2010) Nucleic Acids Research , vol.38 , Issue.SUPPL. 2
    • Voss, N.1    Gerstein, M.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.