Modeling and visualization of receptor clustering on the cellular membrane
In cell biology, apopotosis is a very important cellular process. Apopotosis, or programmed cell death, allows an organism to remove damaged or unneeded cells in a structured manner in contrast to necrosis. Ligands bind to the death receptors located on the cellular membrane forming ligand-receptor...
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| Vydáno v: | 2011 IEEE Symposium on Biological Data Visualization s. 9 - 15 |
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| Hlavní autoři: | , , , |
| Médium: | Konferenční příspěvek |
| Jazyk: | angličtina |
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IEEE
01.10.2011
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| ISBN: | 9781467300032, 1467300039, 1467300047, 9781467300049 |
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| Abstract | In cell biology, apopotosis is a very important cellular process. Apopotosis, or programmed cell death, allows an organism to remove damaged or unneeded cells in a structured manner in contrast to necrosis. Ligands bind to the death receptors located on the cellular membrane forming ligand-receptor clusters. In this paper, we develop a novel mathematical model describing the stochastic process of the ligand-receptor clustering. To study the structure and the size of the ligand-receptor clusters, a stochastic particle simulation is employed. Besides the translation of the particles on the cellular membrane, we also take the particle rotation into account as we model binding sites explicitly. Glyph-based visualization techniques are used to validate and analyze the results of our in-silico model. Information on the individual clusters as well as particle-specific data can be selected by the user and is mapped to colors to highlight certain properties of the data. The results of our model look very promising. The visualization supports the process of model development by visual data analysis including the identification of cluster components as well as the illustration of particle trajectories. |
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| AbstractList | In cell biology, apopotosis is a very important cellular process. Apopotosis, or programmed cell death, allows an organism to remove damaged or unneeded cells in a structured manner in contrast to necrosis. Ligands bind to the death receptors located on the cellular membrane forming ligand-receptor clusters. In this paper, we develop a novel mathematical model describing the stochastic process of the ligand-receptor clustering. To study the structure and the size of the receptor clusters, a stochastic particle simulation is employed. Besides the translation of the particles on the plasma membrane, we also take the particle rotation into account as we model binding sites explicitly. Glyph-based visualization techniques are used to validate and analyze the results of our in-silico model. Information on the individual clusters as well as particle-specific data can be selected by the user and are mapped to colors to highlight certain properties of the data. The preliminary results of our model look very promising. The visualization supports the process of model development by visual data analysis containing the identification of cluster components as well as the illustration of particle trajectories. In cell biology, apopotosis is a very important cellular process. Apopotosis, or programmed cell death, allows an organism to remove damaged or unneeded cells in a structured manner in contrast to necrosis. Ligands bind to the death receptors located on the cellular membrane forming ligand-receptor clusters. In this paper, we develop a novel mathematical model describing the stochastic process of the ligand-receptor clustering. To study the structure and the size of the ligand-receptor clusters, a stochastic particle simulation is employed. Besides the translation of the particles on the cellular membrane, we also take the particle rotation into account as we model binding sites explicitly. Glyph-based visualization techniques are used to validate and analyze the results of our in-silico model. Information on the individual clusters as well as particle-specific data can be selected by the user and is mapped to colors to highlight certain properties of the data. The results of our model look very promising. The visualization supports the process of model development by visual data analysis including the identification of cluster components as well as the illustration of particle trajectories. |
| Author | Daub, M. Ertl, T. Falk, M. Schneider, G. |
| Author_xml | – sequence: 1 givenname: M. surname: Falk fullname: Falk, M. email: falk@vis.uni-stuttgart.de organization: VISUS - Visualization Res. Center, Univ. of Stuttgart, Stuttgart, Germany – sequence: 2 givenname: M. surname: Daub fullname: Daub, M. email: daub@mathematik.uni-stuttgart.de organization: Inst. of Anal., Dynamics, & Modeling, Univ. of Stuttgart, Stuttgart, Germany – sequence: 3 givenname: G. surname: Schneider fullname: Schneider, G. email: schneider@mathematik.uni-stuttgart.de organization: Inst. of Anal., Dynamics, & Modeling, Univ. of Stuttgart, Stuttgart, Germany – sequence: 4 givenname: T. surname: Ertl fullname: Ertl, T. email: ertl@vis.uni-stuttgart.de organization: VISUS - Visualization Res. Center, Univ. of Stuttgart, Stuttgart, Germany |
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| Snippet | In cell biology, apopotosis is a very important cellular process. Apopotosis, or programmed cell death, allows an organism to remove damaged or unneeded cells... |
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| SubjectTerms | Biomembranes Computational modeling Data visualization Force Glyphs I.3.3 [Computer Graphics]: Picture/Image Generation I.3.7 [Computer Graphics]: Three-Dimensional Graphics and Realism I.3.8 [Computer Graphics]: Applications I.6.5 [Simulation and Modeling]: Model Development - Modeling Methodologies I.6.8 [Simulation and Modeling]: Types of Simulation - Discrete Event Image color analysis J.3 [Life and Medical Sciences]: Biology and Genetics Mathematical model Proteins SystemBiology |
| Title | Modeling and visualization of receptor clustering on the cellular membrane |
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