TY - JOUR
T1 - Automated Tracking of Biopolymer Growth and Network Deformation with TSOAX
AU - Xu, Ting
AU - Langouras, Christos
AU - Koudehi, Maral Adeli
AU - Vos, Bart E.
AU - Wang, Ning
AU - Koenderink, Gijsje H.
AU - Huang, Xiaolei
AU - Vavylonis, Dimitrios
N1 - Funding Information:
This work was supported by NIH grants R01GM114201 and R01GM098430. GHK and BEV acknowledge support from the Netherlands Organisation for Scientific Research (NWO) and the Foundation for Fundamental Research on Matter (FOM Program grant nr 143). We thank Jian-Qiu Wu for his help with the experiments with fission yeast.
Publisher Copyright:
© 2019, The Author(s).
PY - 2019/12/1
Y1 - 2019/12/1
N2 - Studies of how individual semi-flexible biopolymers and their network assemblies change over time reveal dynamical and mechanical properties important to the understanding of their function in tissues and living cells. Automatic tracking of biopolymer networks from fluorescence microscopy time-lapse sequences facilitates such quantitative studies. We present an open source software tool that combines a global and local correspondence algorithm to track biopolymer networks in 2D and 3D, using stretching open active contours. We demonstrate its application in fully automated tracking of elongating and intersecting actin filaments, detection of loop formation and constriction of tilted contractile rings in live cells, and tracking of network deformation under shear deformation.
AB - Studies of how individual semi-flexible biopolymers and their network assemblies change over time reveal dynamical and mechanical properties important to the understanding of their function in tissues and living cells. Automatic tracking of biopolymer networks from fluorescence microscopy time-lapse sequences facilitates such quantitative studies. We present an open source software tool that combines a global and local correspondence algorithm to track biopolymer networks in 2D and 3D, using stretching open active contours. We demonstrate its application in fully automated tracking of elongating and intersecting actin filaments, detection of loop formation and constriction of tilted contractile rings in live cells, and tracking of network deformation under shear deformation.
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U2 - 10.1038/s41598-018-37182-6
DO - 10.1038/s41598-018-37182-6
M3 - Article
C2 - 30737416
AN - SCOPUS:85061242692
SN - 2045-2322
VL - 9
JO - Scientific reports
JF - Scientific reports
IS - 1
M1 - 1717
ER -