用极值分析法识别短模体
Identifying short motifs by means of extreme value analysis
摘要：
在一个长的DNA序列上检测一个结合位点--一个转录因子附着的DNA子串--的问题需要在一个大的背景中识别一个小的模式。对于短的结合位点，匹配概率可以显示从一个推定的结合位点到另一个推定的结合位置的大的波动。在这里，我们使用一个自洽的统计过程，正确地占匹配概率的大偏差，以预测短的结合位点的位置。我们将其应用于两种不同的情况：（a）检测一组134个雌激素调节基因上的三个特定转录因子的结合位点;（b）在一组138个可能的转录因子中识别结合一组特定的9个基因的转录因子。在这两种情况下，实验结果被复制（当可用时），并且相对于常用的其他方法，假阳性的数量显著减少。
英文摘要：
The problem of detecting a binding site -- a substring of DNA where transcription factors attach -- on a long DNA sequence requires the recognition of a small pattern in a large background. For short binding sites, the matching probability can display large fluctuations from one putative binding site to another. Here we use a self-consistent statistical procedure that accounts correctly for the large deviations of the matching probability to predict the location of short binding sites. We apply it in two distinct situations: (a) the detection of the binding sites for three specific transcription factors on a set of 134 estrogen-regulated genes; (b) the identification, in a set of 138 possible transcription factors, of the ones binding a specific set of nine genes. In both instances, experimental findings are reproduced (when available) and the number of false positives is significantly reduced with respect to the other methods commonly employed.
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