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Title: A novel universal algorithm for filament network tracing and cytoskeleton analysis
Authors: Flormann, Daniel A.D.Schu, MoritzTerriac, EmmanuelThalla, DivyenduKainka, LucinaKoch, MarcusGad, Annica K.B.Lautenschläger, Franziska
Publishers version: https://doi.org/10.1096/fj.202100048R
URI: https://oa.tib.eu/renate/handle/123456789/6194
https://doi.org/10.34657/5241
Issue Date: 2021
Published in: The FASEB journal : the journal of the Federation of American Societies for Experimental Biology 35 (2021), Nr. 5
Journal: The FASEB journal : the journal of the Federation of American Societies for Experimental Biology
Volume: 35
Issue: 5
Page Start: e21582
Publisher: Hoboken, NJ : Wiley
Abstract: The rapid development of advanced microscopy techniques over recent decades has significantly increased the quality of imaging and our understanding of subcellular structures, such as the organization of the filaments of the cytoskeleton using fluorescence and electron microscopy. However, these recent improvements in imaging techniques have not been matched by similar development of techniques for computational analysis of the images of filament networks that can now be obtained. Hence, for a wide range of applications, reliable computational analysis of such two-dimensional methods remains challenging. Here, we present a new algorithm for tracing of filament networks. This software can extract many important parameters from grayscale images of filament networks, including the mesh hole size, and filament length and connectivity (also known as Coordination Number). In addition, the method allows sub-networks to be distinguished in two-dimensional images using intensity thresholding. We show that the algorithm can be used to analyze images of cytoskeleton networks obtained using different advanced microscopy methods. We have thus developed a new improved method for computational analysis of two-dimensional images of filamentous networks that has wide applications for existing imaging techniques. The algorithm is available as open-source software.
Keywords: image analysis; intermediate filaments; microtubules; actin; cytoskeleton
Type: article; Text
Publishing status: publishedVersion
DDC: 570
License: CC BY-NC-ND 4.0 Unported
Link to license: https://creativecommons.org/licenses/by-nc-nd/4.0/
Appears in Collections:Biowissenschaften

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Flormann, Daniel A.D., Moritz Schu, Emmanuel Terriac, Divyendu Thalla, Lucina Kainka, Marcus Koch, Annica K.B. Gad and Franziska Lautenschläger, 2021. A novel universal algorithm for filament network tracing and cytoskeleton analysis. 2021. Hoboken, NJ : Wiley
Flormann, D. A. D., Schu, M., Terriac, E., Thalla, D., Kainka, L., Koch, M., Gad, A. K. B. and Lautenschläger, F. (2021) “A novel universal algorithm for filament network tracing and cytoskeleton analysis.” Hoboken, NJ : Wiley. doi: https://doi.org/10.1096/fj.202100048R.
Flormann D A D, Schu M, Terriac E, Thalla D, Kainka L, Koch M, Gad A K B, Lautenschläger F. A novel universal algorithm for filament network tracing and cytoskeleton analysis. Vol. 35. Hoboken, NJ : Wiley; 2021.
Flormann, D. A. D., Schu, M., Terriac, E., Thalla, D., Kainka, L., Koch, M., Gad, A. K. B., & Lautenschläger, F. (2021). A novel universal algorithm for filament network tracing and cytoskeleton analysis (Version publishedVersion, Vol. 35). Version publishedVersion, Vol. 35. Hoboken, NJ : Wiley. https://doi.org/https://doi.org/10.1096/fj.202100048R
Flormann D A D, Schu M, Terriac E, Thalla D, Kainka L, Koch M, Gad A K B, Lautenschläger F. A novel universal algorithm for filament network tracing and cytoskeleton analysis. 2021;35(5). doi:https://doi.org/10.1096/fj.202100048R


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