ArchTEx: accurate extraction and visualization of next-generation sequence data
ArchTEx: accurate extraction and visualization of next-generation sequence data
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DOI：
10.1093/bioinformatics/bts063
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发表时间：
2012-04-01
期刊：
影响因子：
5.8
通讯作者：
Buck, Michael J.
中科院分区：
文献类型：
--
作者：
Lai, William K. M.;Bard, Jonathan E.;Buck, Michael J.
动机：在分析来自蛋白质定位和染色质研究的单端下一代测序（NGS）数据时，映射序列标签的延伸是一个常见步骤。根据实验和技术条件的不同，最佳延伸量可能有所不同。序列标签的不当延伸会模糊或误导NGS结果的解释。我们提出了一种算法ArchTEx (Architectural Tag Extender)，该算法基于正向和反向标签之间的最大相关性来识别序列标签的最佳扩展，并使用预测的扩展提取和可视化感兴趣的站点。
Motivation: The extension of mapped sequence tags is a common step in the analysis of single-end next-generation sequencing (NGS) data from protein localization and chromatin studies. The optimal extension can vary depending on experimental and technical conditions. Improper extension of sequence tags can obscure or mislead the interpretation of NGS results. We present an algorithm, ArchTEx (Architectural Tag Extender), which identifies the optimal extension of sequence tags based on the maximum correlation between forward and reverse tags and extracts and visualizes sites of interest using the predicted extension.