Automated Tracking of Biopolymer Growth and Network Deformation with TSOAX View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2019-12

AUTHORS

Ting Xu, Christos Langouras, Maral Adeli Koudehi, Bart E. Vos, Ning Wang, Gijsje H. Koenderink, Xiaolei Huang, Dimitrios Vavylonis

ABSTRACT

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. More... »

PAGES

1717

References to SciGraph publications

  • 2008. Automatic Tracking of Escherichia Coli Bacteria in MEDICAL IMAGE COMPUTING AND COMPUTER-ASSISTED INTERVENTION – MICCAI 2008
  • 2012-11. Spontaneous motion in hierarchically assembled active matter in NATURE
  • 2015-08. SOAX: A software for quantification of 3D biopolymer networks in SCIENTIFIC REPORTS
  • 2015. A Hybrid Approach for Segmentation and Tracking of Myxococcus Xanthus Swarms in MEDICAL IMAGE COMPUTING AND COMPUTER-ASSISTED INTERVENTION – MICCAI 2015
  • 2016-11. DeFiNe: an optimisation-based method for robust disentangling of filamentous networks in SCIENTIFIC REPORTS
  • 2017-05. Nanoscale movements of cellulose microfibrils in primary cell walls in NATURE PLANTS
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    PUBMED

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