Quimp3, an automated pseudopod-tracking algorithm
Quimp3, an automated pseudopod-tracking algorithm
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DOI：
10.4161/cam.4.1.9953
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发表时间：
2010-01-01
影响因子：
3.2
通讯作者：
Van Haastert, Peter J. M.
中科院分区：
文献类型：
--
作者：
Bosgraaf, Leonard;Van Haastert, Peter J. M.
为了了解变形虫细胞的运动，我们开发了一种信息工具，可以自动检测运动细胞的突起。该算法使用数字化细胞记录，速度类似于每秒1张图像，分三步进行分析。在第一部分中，使用之前发布的Quimp 2程序将单元格的轮廓定义为类似于150个节点的多边形。通过比较节点在地点和时间上的位置，每个节点包含关于位置、局部曲率和移动速度的信息。第二部分使用曲率和运动规则来定义生长伪足的开始和结束的位置和时间。该算法的这一部分产生关于伪足延伸的大小、表面积、寿命、频率和方向的定量数据。算法的第三部分为每个伪足分配定性属性。它将伪足的起源确定为现有伪足的分裂或重新扩展。它还决定每个伪足的命运，与细胞体合并或收回。在这里，我们描述了伪足工具，并提出了第一个数据的基础上分析的类似1,000伪足扩展的Dictyosteopathy细胞在没有外部线索。
To understand movement of amoeboid cells we have developed an information tool that automatically detects protrusions of moving cells. The algorithm uses digitized cell recordings at a speed of similar to 1 image per second that are analyzed in three steps. In the first part, the outline of a cell is defined as a polygon of similar to 150 nodes, using the previously published Quimp2 program. By comparing the position of the nodes in place and time, each node contains information on position, local curvature and speed of movement. The second part uses rules for curvature and movement to define the position and time of start and end of a growing pseudopod. This part of the algorithm produces quantitative data on size, surface area, lifetime, frequency and direction of pseudopod extension. The third part of the algorithm assigns qualitative properties to each pseudopod. It decides on the origin of a pseudopod as splitting of an existing pseudopod or as extension de novo. It also decides on the fate of each pseudopod as merged with the cell body or retracted. Here we describe the pseudopod tool and present the first data based on the analysis of similar to 1,000 pseudopodia extended by Dictyostelium cells in the absence of external cues.