title: plusTipTracker: Quantitative image analysis software for the measurement of microtubule dynamics.
abstract: Here we introduce plusTipTracker, a Matlab-based open source software package that combines automated tracking, data analysis, and visualization tools for movies of fluorescently-labeled microtubule (MT) plus end binding proteins (+TIPs). Although +TIPs mark only phases of MT growth, the plusTipTracker software allows inference of additional MT dynamics, including phases of pause and shrinkage, by linking collinear, sequential growth tracks. The algorithm underlying the reconstruction of full MT trajectories relies on the spatially and temporally global tracking framework described in Jaqaman et al. (2008). Post-processing of track populations yields a wealth of quantitative phenotypic information about MT network architecture that can be explored using several visualization modalities and bioinformatics tools included in plusTipTracker. Graphical user interfaces enable novice Matlab users to track thousands of MTs in minutes. In this paper, we describe the algorithms used by plusTipTracker and show how the package can be used to study regional differences in the relative proportion of MT subpopulations within a single cell. The strategy of grouping +TIP growth tracks for the analysis of MT dynamics has been introduced before (Matov et al., 2010). The numerical methods and analytical functionality incorporated in plusTipTracker substantially advance this previous work in terms of flexibility and robustness. To illustrate the enhanced performance of the new software we thus compare computer-assembled +TIP-marked trajectories to manually-traced MT trajectories from the same movie used in Matov et al. (2010).
authors.affiliation: The Scripps Research Institute, La Jolla, CA 92037, USA.
authors.forename: Kathryn T
authors.initials: KT
authors.lastname: Applegate
authors.forename: Sebastien
authors.initials: S
authors.lastname: Besson
authors.forename: Alexandre
authors.initials: A
authors.lastname: Matov
authors.forename: Maria H
authors.initials: MH
authors.lastname: Bagonis
authors.forename: Khuloud
authors.initials: K
authors.lastname: Jaqaman
authors.forename: Gaudenz
authors.initials: G
authors.lastname: Danuser
mesh_terms: D000465:Algorithms; D019295:Computational Biology; D003198:Computer Simulation; D042783:Endothelial Cells / Q000378:metabolism; D049452:Green Fluorescent Proteins / Q000378:metabolism; D006801:Humans; D007091:Image Processing, Computer-Assisted; D018715:Microscopy, Video; D008869:Microtubule-Associated Proteins / Q000378:metabolism; D008870:Microtubules / Q000145:classification / Q000378:metabolism*; D008954:Models, Biological; D055503:Protein Multimerization; D011993:Recombinant Fusion Proteins / Q000378:metabolism; D059010:Single-Cell Analysis / Q000379:methods; D012984:Software; D014404:Tubulin / Q000378:metabolism; D014584:User-Computer Interface
chemical_list: C405804:EB1 microtubule binding proteins; D008869:Microtubule-Associated Proteins; D011993:Recombinant Fusion Proteins; D014404:Tubulin; C485184:enhanced green fluorescent protein; D049452:Green Fluorescent Proteins