plusTipTracker: Quantitative image analysis software for the measurement of microtubule dynamics.
plusTipTracker: Quantitative image analysis software for the measurement of microtubule dynamics.
复制标题
DOI：
10.1016/j.jsb.2011.07.009
复制
发表时间：
2011-11
影响因子：
3
通讯作者：
Danuser, Gaudenz
中科院分区：
文献类型：
--
作者：
Applegate, Kathryn T.;Besson, Sebastien;Matov, Alexandre;Bagonis, Maria H.;Jaqaman, Khuloud;Danuser, Gaudenz
在这里，我们介绍plusTipTracker，一个基于Matlab的开源软件包，它结合了自动跟踪，数据分析和可视化工具，用于荧光标记的微管（MT）和末端结合蛋白（+TIP）的电影。虽然+TIPs仅标记MT生长的阶段，但plusTipTracker软件通过连接共线的连续生长轨迹，可以推断其他MT动态，包括暂停和收缩阶段。重建完整MT轨迹的算法依赖于中描述的空间和时间全局跟踪框架。跟踪群体的后处理产生了大量关于MT网络结构的定量表型信息，可以使用plusTipTracker中包含的几种可视化模式和生物信息学工具进行探索。图形用户界面使Matlab新手用户能够在几分钟内跟踪数千个MT。在本文中，我们描述了所使用的算法plusTipTracker，并展示了如何包可用于研究区域差异的MT亚群在一个单一的细胞内的相对比例。以前已经介绍了用于MT动力学分析的分组+TIP增长轨迹的策略。plusTipTracker中包含的数值方法和分析功能在灵活性和鲁棒性方面大大推进了以前的工作。为了说明新软件的增强性能，我们将计算机组装+TIP标记的轨迹与中使用的同一电影中手动跟踪的MT轨迹进行比较。
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. 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. 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.
登录
查看更多内容
DOI：
10.1109/tpami.2004.44
发表时间：
2004-08-01
影响因子：
23.6
作者：
Jacob, M;Unser, M
通讯作者：
Unser, M
DOI：
10.1073/pnas.0902317106
发表时间：
2009-09-08
影响因子：
11.1
作者：
Houghtaling, Benjamin R.;Yang, Ge;Kapoor, Tarun M.
通讯作者：
Kapoor, Tarun M.
DOI：
10.1083/jcb.201006009
发表时间：
2011-01-24
期刊：
The Journal of cell biology
影响因子：
--
作者：
Myers KA;Applegate KT;Danuser G;Fischer RS;Waterman CM
通讯作者：
Waterman CM
影响因子：
64.8
作者：
MITCHISON, T;KIRSCHNER, M
通讯作者：
KIRSCHNER, M
DOI：
10.1083/jcb.200707203
发表时间：
2008-02-25
期刊：
The Journal of cell biology
影响因子：
--
作者：
Dragestein KA;van Cappellen WA;van Haren J;Tsibidis GD;Akhmanova A;Knoch TA;Grosveld F;Galjart N
通讯作者：
Galjart N