Heuristic Modeling and 3D Stereoscopic Visualization of a Chlamydomonas reinhardtii Cell

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2018
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Biere, Niklas
Doebbe, Anja
Jäger, Daniel
Rothe, Nils
Friedrich, Benjamin M.
Hofestädt, Ralf
Kruse, Olaf
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Journal of integrative bioinformatics. 2018, 15(2), 20180003. eISSN 1613-4516. Available under: doi: 10.1515/jib-2018-0003
Zusammenfassung

The structural modeling and representation of cells is a complex task as different microscopic, spectroscopic and other information resources have to be combined to achieve a three-dimensional representation with high accuracy. Moreover, to provide an appropriate spatial representation of the cell, a stereoscopic 3D (S3D) visualization is favorable. In this work, a structural cell model is created by combining information from various light microscopic and electron microscopic images as well as from publication-related data. At the mesoscopic level each cell component is presented with special structural and visual properties; at the molecular level a cell membrane composition and the underlying modeling method are discussed; and structural information is correlated with those at the functional level (represented by simplified energy-producing metabolic pathways). The organism used as an example is the unicellular Chlamydomonas reinhardtii, which might be important in future alternative energy production processes. Based on the 3D model, an educative S3D animation was created which was shown at conferences. The complete workflow was accomplished by using the open source 3D modeling software Blender. The discussed project including the animation is available from: http://Cm5.CELLmicrocosmos.org.

Zusammenfassung in einer weiteren Sprache
Fachgebiet (DDC)
004 Informatik
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Cell Modeling and Visualization; Microscopic Imaging; Computational Biology
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ISO 690BIERE, Niklas, Mehmood GHAFFAR, Anja DOEBBE, Daniel JÄGER, Nils ROTHE, Benjamin M. FRIEDRICH, Ralf HOFESTÄDT, Falk SCHREIBER, Olaf KRUSE, Björn SOMMER, 2018. Heuristic Modeling and 3D Stereoscopic Visualization of a Chlamydomonas reinhardtii Cell. In: Journal of integrative bioinformatics. 2018, 15(2), 20180003. eISSN 1613-4516. Available under: doi: 10.1515/jib-2018-0003
BibTex
@article{Biere2018-07-11Heuri-42911,
  year={2018},
  doi={10.1515/jib-2018-0003},
  title={Heuristic Modeling and 3D Stereoscopic Visualization of a Chlamydomonas reinhardtii Cell},
  number={2},
  volume={15},
  journal={Journal of integrative bioinformatics},
  author={Biere, Niklas and Ghaffar, Mehmood and Doebbe, Anja and Jäger, Daniel and Rothe, Nils and Friedrich, Benjamin M. and Hofestädt, Ralf and Schreiber, Falk and Kruse, Olaf and Sommer, Björn},
  note={Article Number: 20180003}
}
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