分割合并点在二维聚丙烯酰胺凝胶电泳凝胶图像。

P F Lemkin, J E Myrick, K M Upton
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引用次数: 0

摘要

我们描述了一种启发式计算机算法,使用边界分析来改进二维聚丙烯酰胺电泳凝胶中大饱和或近饱和斑点的斑点发现和斑点定量。这种斑点定量是通过斑点分割完成的,它由斑点发现和随后的量化步骤组成。有时,在寻找黑点的过程中,大量饱和的黑点可能会合并在一起。为了纠正这一点,必须在定量之前将合并的斑点分开。从合并点的边界来看,它们应该被切割的位置通常是显而易见的——在相对的鞍点(边界上的凹陷)。该算法在检测到饱和斑点时,对错误分割的斑点边界进行分析。如果一个接近饱和的斑点大于给定的大小,斑点分割程序将尝试合并饱和的碎片。当合并发生时,分割程序分析边界,看看是否应该分割点。新算法首先找到所有鲁棒凹,然后尝试匹配互补凹。然后使用这些成对的凹形来引导将错误分割的斑点切割成两个或多个独立的斑点区域。最后,将控制返回给分割程序,将数据重新处理为一组较小的分离点。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Splitting merged spots in two-dimensional polyacrylamide gel electrophoresis gel images.

We describe a heuristic computer algorithm using boundary analysis for improving spot finding and spot quantitation of large saturated or near-saturated spots in two-dimensional polyacrylamide electrophoresis gels. This spot quantitation is done using spot segmentation, which consists of spot finding and subsequent quantification steps. Occasionally, clusters of large saturated spots may become merged during spot finding. To correct this, the merged spots must be cut apart before quantitation. It is generally obvious from viewing the merged spot's border where they should be cut--at opposing saddlepoints (concavities in the boundary). The algorithm uses an analysis of the missegmented spot's boundary when a saturated spot is detected. If a near-saturated spot is larger than a given size, the spot segmenter program attempts to merge saturated fragments. When merging occurs, the segmenter program analyses the boundary to see if the spot should be split. The new algorithm first finds all robust concavities and then tries to match complementary ones. These paired concavities are then used to guide cutting of the missegmented spot into two or more separate spot regions. Finally, control is returned to the segmenter program to reprocess the data as a set of smaller separated spots.

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