Fast and automatic processing of multi-level events in nanopore translocation experiments
Fast and automatic processing of multi-level events in nanopore translocation experiments
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DOI：
10.1039/c2nr30951c
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发表时间：
2012-01-01
期刊：
影响因子：
6.7
通讯作者：
Radenovic, A.
中科院分区：
文献类型：
--
作者：
Raillon, C.;Granjon, P.;Radenovic, A.
我们已经开发了一种方法来详细分析，易位事件提供了一种新的和灵活的工具，纳米孔实验的数据分析。我们的程序名为OpenNanopore，基于累积和算法（Cumulative Sums Algorithm）。该算法是一种突变检测算法，可提供当前阻塞的拟合，允许用户轻松识别每个事件中的不同级别。我们的方法使用适应基线中低频变化的自适应阈值来检测事件。在事件识别之后，我们的方法使用了CRAMUM算法来拟合每个事件内部的水平，并自动提取它们的时间和幅度信息。这有助于对具有给定数量的水平的事件群体进行统计分析。所获得的信息改善了分子和纳米孔之间相互作用的解释。由于我们的程序不需要任何有关分析分子的先验信息，因此可以表征新的分子-纳米孔相互作用。此外，我们的程序非常快速和稳定。随着制备技术的进步和转位速度的控制，在不久的将来，我们的程序可能是有用的识别不同的碱基的DNA。
We have developed a method to analyze in detail, translocation events providing a novel and flexible tool for data analysis of nanopore experiments. Our program, called OpenNanopore, is based on the cumulative sums algorithm (CUSUM algorithm). This algorithm is an abrupt change detection algorithm that provides fitting of current blockages, allowing the user to easily identify the different levels in each event. Our method detects events using adaptive thresholds that adapt to low-frequency variations in the baseline. After event identification, our method uses the CUSUM algorithm to fit the levels inside every event and automatically extracts their time and amplitude information. This facilitates the statistical analysis of an event population with a given number of levels. The obtained information improves the interpretation of interactions between the molecule and nanopore. Since our program does not require any prior information about the analyzed molecules, novel molecule-nanopore interactions can be characterized. In addition our program is very fast and stable. With the progress in fabrication and control of the translocation speed, in the near future, our program could be useful in identification of the different bases of DNA.