u-track protocols

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u-track specifications

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Unique identifier OMICS_06584
Name u-track
Software type Application/Script
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages MATLAB
Computer skills Medium
Version 2.2.1
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Khuloud Jaqaman <>

Publication for u-track

u-track in pipeline

2017
PMCID: 5578721
PMID: 28827840
DOI: 10.1371/journal.ppat.1006570

[…] matlab program (). after adjusting for the movement of the nucleus during the time-course, 3d localization (x,y,z) of the yfp-labeled particles was conducted using fish-quant software []. u-track algorithm was used for 3d single-particle tracking []., ensemble msds were calculated from positional coordinates as previously described []. in free diffusion, the msds [r2(t)] for 3d tracks […]


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u-track in publications

 (69)
PMCID: 5940692
PMID: 29739927
DOI: 10.1038/s41467-018-04185-w

[…] in the presence of complete medium containing cell-impermeable bromocresol green (bcg) that quenched extracellular qds (supplementary fig. ). single-particle videos were analyzed by spt using matlab u-track software, and each particle trajectory was separately analyzed for diffusion and optical brightness (fig. ). for diffusion analysis, a mean squared displacement (msd) curve by time increment […]

PMCID: 5927468
PMID: 29668686
DOI: 10.1371/journal.pbio.2005377

[…] clathrin structures were detected using a gaussian-based model method to approximate the point-spread function [], and trajectories were determined from clathrin structure detections using the u-track software []. subthreshold clathrin-labeled structures (sclss) were distinguished from bona fide ccps, based on the quantitative and unbiased analysis of clathrin intensity progression […]

PMCID: 5906680
PMID: 29670084
DOI: 10.1038/s41467-018-02905-w

[…] ations were subjected to frame by frame tracking, immobile molecules were filtered by a density-based spatial clustering of applications with noise (dbscan) algorithm. tracking was performed with the u-track algorithm developed by jacqaman. diffusional properties of individual emitters were determined by fitting the msd assuming free brownian motion\documentclass[12pt]{minimal} \usepackage{ams […]

PMCID: 5861215
PMID: 29593700
DOI: 10.3389/fmicb.2018.00468

[…] i), intergenic spacer (element ii) and a transcription initiation sequence (element iii), which is a common characteristic of the rhabdoviruses (jackson et al., ). element i consisted of a poly-u track of five residues in all gene locations, except that of the 3′ leader/n and p6/l junction, which had three and two residues, respectively. element ii consisted of a gggg residues except […]

PMCID: 5945276
PMID: 29697047
DOI: 10.7554/eLife.33402.022

[…] vs time for each their examples of time-lapse video data in the manuscript., we evaluated the utility of several image analysis software (including the trackmate imagej plugin, cellprofiler, u-track 2.0, and even custom matlab code). indeed, we are experts at developing quantitative image analysis routines (please see our previous, peer-reviewed works – schreiner et al., 2015 and zhao et […]


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u-track institution(s)
Department of Cell Biology, The Scripps Research Institute, La Jolla, CA, USA; Department of Cell Biology, The Hospital for Sick Children, Toronto, ON, Canada
u-track funding source(s)
Supported by the National Institutes of Health R01 grant GM73165, by grants from the Heart and Stroke Foundation of Canada and the Canadian Institutes for Health Research, and by a postdoctoral fellowship from The Helen Hay Whitney Foundation/The Agouron Institute.

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