Visualization of Biomolecular Structures: State of the Art Revisited

B. Kozlíková; M. Krone; M. Falk; N. Lindow; M. Baaden; D. Baum; I. Viola; J. Parulek; H. C. Hege

doi:10.1111/cgf.13072

Visualization of Biomolecular Structures: State of the Art Revisited

B. Kozlíková, M. Krone, M. Falk, N. Lindow, M. Baaden, D. Baum, I. Viola, J. Parulek, H. C. Hege

Research output: Contribution to journal › Article › peer-review

76 Scopus citations

Abstract

Structural properties of molecules are of primary concern in many fields. This report provides a comprehensive overview on techniques that have been developed in the fields of molecular graphics and visualization with a focus on applications in structural biology. The field heavily relies on computerized geometric and visual representations of three-dimensional, complex, large and time-varying molecular structures. The report presents a taxonomy that demonstrates which areas of molecular visualization have already been extensively investigated and where the field is currently heading. It discusses visualizations for molecular structures, strategies for efficient display regarding image quality and frame rate, covers different aspects of level of detail and reviews visualizations illustrating the dynamic aspects of molecular simulation data. The survey concludes with an outlook on promising and important research topics to foster further success in the development of tools that help to reveal molecular secrets.

Original language	English (US)
Pages (from-to)	178-204
Number of pages	27
Journal	Computer Graphics Forum
Volume	36
Issue number	8
DOIs	https://doi.org/10.1111/cgf.13072
State	Published - Dec 2017
Externally published	Yes

Bibliographical note

Funding Information:
This work was supported through grants from the German Research Foundation (DFG) as part of SFB 716, the Senate Department for Economics, Technology and Research in Berlin, the Excellence Center at Linköping and Lund in Information Technology (ELLIIT), the French Agency for Research grants ExaViz (ANR-11-MONU-003) and Dynamo (ANR-11-LABX-0011), the Vienna Science and Technology Fund (WWTF) through project VRG11-010, the OeAD ICM through project CZ 17/2015, the Norway grants project NF-CZ07-MOP-2-086-2014 and the PhysioIllustration research project 218023 funded by the Norwegian Research Council.

Publisher Copyright:
© 2016 The Authors Computer Graphics Forum published by John Wiley & Sons Ltd.

Keywords

bioinformatics visualization
molecular visualization
taxonomy

ASJC Scopus subject areas

Computer Graphics and Computer-Aided Design

Access to Document

10.1111/cgf.13072

Cite this

@article{d690cfaf16294d548728c26c2ffc86cc,

title = "Visualization of Biomolecular Structures: State of the Art Revisited",

abstract = "Structural properties of molecules are of primary concern in many fields. This report provides a comprehensive overview on techniques that have been developed in the fields of molecular graphics and visualization with a focus on applications in structural biology. The field heavily relies on computerized geometric and visual representations of three-dimensional, complex, large and time-varying molecular structures. The report presents a taxonomy that demonstrates which areas of molecular visualization have already been extensively investigated and where the field is currently heading. It discusses visualizations for molecular structures, strategies for efficient display regarding image quality and frame rate, covers different aspects of level of detail and reviews visualizations illustrating the dynamic aspects of molecular simulation data. The survey concludes with an outlook on promising and important research topics to foster further success in the development of tools that help to reveal molecular secrets.",

keywords = "bioinformatics visualization, molecular visualization, taxonomy",

author = "B. Kozl{\'i}kov{\'a} and M. Krone and M. Falk and N. Lindow and M. Baaden and D. Baum and I. Viola and J. Parulek and Hege, {H. C.}",

note = "Funding Information: This work was supported through grants from the German Research Foundation (DFG) as part of SFB 716, the Senate Department for Economics, Technology and Research in Berlin, the Excellence Center at Link{\"o}ping and Lund in Information Technology (ELLIIT), the French Agency for Research grants ExaViz (ANR-11-MONU-003) and Dynamo (ANR-11-LABX-0011), the Vienna Science and Technology Fund (WWTF) through project VRG11-010, the OeAD ICM through project CZ 17/2015, the Norway grants project NF-CZ07-MOP-2-086-2014 and the PhysioIllustration research project 218023 funded by the Norwegian Research Council. Publisher Copyright: {\textcopyright} 2016 The Authors Computer Graphics Forum published by John Wiley & Sons Ltd.",

year = "2017",

month = dec,

doi = "10.1111/cgf.13072",

language = "English (US)",

volume = "36",

pages = "178--204",

journal = "Computer Graphics Forum",

issn = "0167-7055",

publisher = "Wiley",

number = "8",

}

TY - JOUR

T1 - Visualization of Biomolecular Structures

T2 - State of the Art Revisited

AU - Kozlíková, B.

AU - Krone, M.

AU - Falk, M.

AU - Lindow, N.

AU - Baaden, M.

AU - Baum, D.

AU - Viola, I.

AU - Parulek, J.

AU - Hege, H. C.

N1 - Funding Information: This work was supported through grants from the German Research Foundation (DFG) as part of SFB 716, the Senate Department for Economics, Technology and Research in Berlin, the Excellence Center at Linköping and Lund in Information Technology (ELLIIT), the French Agency for Research grants ExaViz (ANR-11-MONU-003) and Dynamo (ANR-11-LABX-0011), the Vienna Science and Technology Fund (WWTF) through project VRG11-010, the OeAD ICM through project CZ 17/2015, the Norway grants project NF-CZ07-MOP-2-086-2014 and the PhysioIllustration research project 218023 funded by the Norwegian Research Council. Publisher Copyright: © 2016 The Authors Computer Graphics Forum published by John Wiley & Sons Ltd.

PY - 2017/12

Y1 - 2017/12

N2 - Structural properties of molecules are of primary concern in many fields. This report provides a comprehensive overview on techniques that have been developed in the fields of molecular graphics and visualization with a focus on applications in structural biology. The field heavily relies on computerized geometric and visual representations of three-dimensional, complex, large and time-varying molecular structures. The report presents a taxonomy that demonstrates which areas of molecular visualization have already been extensively investigated and where the field is currently heading. It discusses visualizations for molecular structures, strategies for efficient display regarding image quality and frame rate, covers different aspects of level of detail and reviews visualizations illustrating the dynamic aspects of molecular simulation data. The survey concludes with an outlook on promising and important research topics to foster further success in the development of tools that help to reveal molecular secrets.

AB - Structural properties of molecules are of primary concern in many fields. This report provides a comprehensive overview on techniques that have been developed in the fields of molecular graphics and visualization with a focus on applications in structural biology. The field heavily relies on computerized geometric and visual representations of three-dimensional, complex, large and time-varying molecular structures. The report presents a taxonomy that demonstrates which areas of molecular visualization have already been extensively investigated and where the field is currently heading. It discusses visualizations for molecular structures, strategies for efficient display regarding image quality and frame rate, covers different aspects of level of detail and reviews visualizations illustrating the dynamic aspects of molecular simulation data. The survey concludes with an outlook on promising and important research topics to foster further success in the development of tools that help to reveal molecular secrets.

KW - bioinformatics visualization

KW - molecular visualization

KW - taxonomy

UR - http://www.scopus.com/inward/record.url?scp=85003946013&partnerID=8YFLogxK

U2 - 10.1111/cgf.13072

DO - 10.1111/cgf.13072

M3 - Article

AN - SCOPUS:85003946013

SN - 0167-7055

VL - 36

SP - 178

EP - 204

JO - Computer Graphics Forum

JF - Computer Graphics Forum

IS - 8

ER -

Visualization of Biomolecular Structures: State of the Art Revisited

Abstract

Bibliographical note

Keywords

ASJC Scopus subject areas

Access to Document

Other files and links

Fingerprint

Cite this