Frameshift detection in prokaryotic genomic sequences.
Frameshift detection in prokaryotic genomic sequences.
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DOI：
10.1504/ijbra.2009.027519
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发表时间：
2009-01-01
影响因子：
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通讯作者：
Borodovsky, Mark
中科院分区：
文献类型：
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作者：
Kislyuk, Andrey;Lomsadze, Alexandre;Borodovsky, Mark
我们开发了一种新的移码检测方法，结合了从头算和基于比对的算法，可以作为下一代测序中测序质量控制的有用工具。我们在蛋白质编码区人工移码的注释基因组序列测试集上评估了该方法的准确性。这些测试表明，新方法的性能与早期开发的 FrameD 相当。在 454 焦磷酸测序产生的序列集上，通过桑格重测序恢复序列错误，该方法的准确性显示保持在相同水平。
We have developed a new method for frameshift detection, a combination of ab initio and alignment-based algorithms, that can serve as a useful tool for sequencing quality control in the next generation sequencing. We evaluated the method's accuracy on test sets of annotated genomic sequences with artificial frameshifts in protein coding regions. These tests have shown that the new method performs comparably to the earlier developed FrameD. On the sets of sequences produced by 454 pyrosequencing with sequence errors recovered by Sanger re-sequencing the accuracy of the method was shown to hold at the same level.