DimSUM: Dimension and Scale Unifying Maps for Visual Abstraction of DNA Origami Structures

Description:

 

We present a novel visualization concept for DNA origami structures that integrates a multitude of representations into a DimSUM. This novel abstraction map provides means to analyze, smoothly transition between, and interact with many visual representations of the DNA origami structures in an effective way that was not possible before. DNA origami structures are nanoscale objects, which are challenging to model in silico. In our holistic approach we seamlessly combine three-dimensional realistic shape models, two-dimensional diagrammatic representations, and ordered alignments in one-dimensional arrangements, with semantic transitions across many scales. To navigate through this large, two-dimensional abstraction map we highlight locations that users frequently visit for certain tasks and datasets. Particularly interesting viewpoints can be explicitly saved to optimize the workflow. We have developed DimSUM together with domain scientists specialized in DNA nanotechnology. In the paper we discuss our design decisions for both the visualization and the interaction techniques. We demonstrate two practical use cases in which our approach increases the specialists' understanding and improves their effectiveness in the analysis. Finally, we discuss the implications of our concept for the use of controlled abstraction in visualization in general.

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Poster presented at FDN 2018:

Cross-Reference:

See our initial multi-scale DNA nanostructure visualization and our more general discussion of visual abstraction in (illustrative) visualization.

Main Reference:

Haichao Miao, Elisa De Llano, Tobias Isenberg, M. Eduard Gröller, Ivan Barišić, and Ivan Viola (2018) DimSUM: Dimension and Scale Unifying Maps for Visual Abstraction of DNA Origami Structures. Computer Graphics Forum, 37(3):403–413, June 2018.
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BibTeX entry:



@ARTICLE{Miao:2018:DDS,
  author      = {Haichao Miao and De Llano, Elisa and Tobias Isenberg and Gr{\"o}ller, M. Eduard and Ivan Bari{\v{s}}i{\'c} and Ivan Viola},
  title       = {{DimSUM}: Dimension and Scale Unifying Maps for Visual Abstraction of {DNA} Origami Structures},
  journal     = {Computer Graphics Forum},
  year        = {2018},
  volume      = {37},
  number      = {3},
  month       = jun,
  pages       = {403--413},
  doi         = {10.1111/cgf.13429},
  doi_url     = {https://doi.org/10.1111/cgf.13429},
  oa_hal_url  = {https://hal.science/hal-01795734},
  url         = {https://tobias.isenberg.cc/p/Miao2018DDS},
  url2        = {https://www.cg.tuwien.ac.at/research/publications/2018/miao2018Dimsum/},
  pdf         = {https://tobias.isenberg.cc/personal/papers/Miao_2018_DDS.pdf},
}

Other References:

Haichao Miao (2019) Geometric Abstraction for Effective Visualization and Modeling. PhD thesis, TU Wien, Austria, August 2019.
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BibTeX entry:



@PHDTHESIS{Miao:2019:GAE,
  author      = {Haichao Miao},
  title       = {Geometric Abstraction for Effective Visualization and Modeling},
  year        = {2019},
  school      = {TU Wien},
  month       = aug,
  address     = {Austria},
  url         = {http://hdl.handle.net/20.500.12708/6514},
  url2        = {https://www.cg.tuwien.ac.at/research/publications/2019/miao_thesis_2019/},
  pdf         = {https://tobias.isenberg.cc/personal/papers_students/Miao_2019_GAE.pdf},
}
Elisa De Llano, Haichao Miao, Tobias Isenberg, M. Eduard Gröller, Ivan Viola, and Ivan Barišić (2018) A Preview to Adenita: Modeling and Visualization of DNA Nanostructures. In Posters at the 3rd Functional DNA Nanotechnology Workshop (FDN, June 6–8, Rome, Italy)., P13, 2018. Poster.
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BibTeX entry:



@INPROCEEDINGS{DeLlano:2018:PAM,
  author      = {De Llano, Elisa and Haichao Miao and Tobias Isenberg and Gr{\"o}ller, M. Eduard and Ivan Viola and Ivan Bari{\v{s}}i{\'c}},
  title       = {A Preview to {A}denita: Modeling and Visualization of {DNA} Nanostructures},
  booktitle   = {Posters at the 3\textsuperscript{rd} Functional DNA Nanotechnology Workshop (FDN, June 6--8, Rome, Italy)},
  year        = {2018},
  pages       = {P13},
  oa_hal_url  = {https://hal.science/hal-01813901},
  url         = {http://maraproject.eu/adenita/},
  url2        = {https://tobias.isenberg.cc/p/Miao2018DDS},
}

This work was done at and in collaboration with the Research Unit of Computer Graphics at TU Wien, Austria, as well as the Austrian Institute of Technology. Also see the AIT Website about the project as well as the page at TU Wien.

     

This work was supported through the Illustrare project, funded by ANR in France and FWF in Austria.