Calibration of a DG–model for fluorescence microscopy

Christian Valdemar Hansen

Calibration of a DG–model for fluorescence microscopy

Christian Valdemar Hansen

Department of Mathematics and Computer Science

Research output: Contribution to conference without publisher/journal › Poster › Research

Abstract

It is well known that diseases like Alzheimer, Parkinson, Corea Huntington and Arteriosclerosis are caused by a jam in intracellular membrane traffic [2]. Hence to improve treatment, a quantitative analysis of intracellular transport is essential. Fluorescence loss in photobleaching (FLIP) is an impor- tant and widely used microscopy method for visualization of molecular transport processes in living cells. Thus, the motivation for making an automated reliable analysis of the image data is high. In this contribution, we present and comment on the calibration of a Discontinuous–Galerkin simulator [3, 4] on segmented cell images. The cell geometry is extracted from FLIP images using the Chan– Vese active contours algorithm [1] while the DG simulator is implemented in FEniCS [5]. Simulated FLIP sequences based on optimal parameters from the PDE model are presented, with an overall goal of making an automated analysis tool for FLIP images.

Original language	Danish
Publication date	22. Jun 2017
Publication status	Published - 22. Jun 2017
Event	13th Annual Meeting of the International Symposium on Integrative Bioinformatics - University of Southern Denmark, Campusvej 55 5230 Odense, Odense, Denmark Duration: 22. Jun 2017 → 24. Jun 2017 Conference number: 13 http://www.imbio.de/ib2017/program.php

Conference

Conference	13th Annual Meeting of the International Symposium on Integrative Bioinformatics
Number	13
Location	University of Southern Denmark, Campusvej 55 5230 Odense
Country/Territory	Denmark
City	Odense
Period	22/06/2017 → 24/06/2017
Internet address	http://www.imbio.de/ib2017/program.php

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Cite this

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title = "Calibration of a DG–model for fluorescence microscopy",

abstract = "It is well known that diseases like Alzheimer, Parkinson, Corea Huntington and Arteriosclerosis are caused by a jam in intracellular membrane traffic [2]. Hence to improve treatment, a quantitative analysis of intracellular transport is essential. Fluorescence loss in photobleaching (FLIP) is an impor- tant and widely used microscopy method for visualization of molecular transport processes in living cells. Thus, the motivation for making an automated reliable analysis of the image data is high. In this contribution, we present and comment on the calibration of a Discontinuous–Galerkin simulator [3, 4] on segmented cell images. The cell geometry is extracted from FLIP images using the Chan– Vese active contours algorithm [1] while the DG simulator is implemented in FEniCS [5]. Simulated FLIP sequences based on optimal parameters from the PDE model are presented, with an overall goal of making an automated analysis tool for FLIP images.",

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T1 - Calibration of a DG–model for fluorescence microscopy

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AB - It is well known that diseases like Alzheimer, Parkinson, Corea Huntington and Arteriosclerosis are caused by a jam in intracellular membrane traffic [2]. Hence to improve treatment, a quantitative analysis of intracellular transport is essential. Fluorescence loss in photobleaching (FLIP) is an impor- tant and widely used microscopy method for visualization of molecular transport processes in living cells. Thus, the motivation for making an automated reliable analysis of the image data is high. In this contribution, we present and comment on the calibration of a Discontinuous–Galerkin simulator [3, 4] on segmented cell images. The cell geometry is extracted from FLIP images using the Chan– Vese active contours algorithm [1] while the DG simulator is implemented in FEniCS [5]. Simulated FLIP sequences based on optimal parameters from the PDE model are presented, with an overall goal of making an automated analysis tool for FLIP images.

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T2 - 13th Annual Meeting of the International Symposium on Integrative Bioinformatics

Y2 - 22 June 2017 through 24 June 2017

ER -