Tanimoto's Best Barbecue: Discovering Regulatory Modules using Tanimoto Scores
Tanimoto's Best Barbecue: Discovering Regulatory Modules using Tanimoto Scores
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DOI：
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发表时间：
2007
期刊：
影响因子：
5.8
通讯作者：
A. Mosig;P. Menzel;P. Stadler
中科院分区：
文献类型：
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作者：
A. Mosig;P. Menzel;P. Stadler
我们提出了一种在启动子序列中发现顺式调控模块的组合方法。我们的方法结合了“滑动窗口”方法和基于所谓谷本分数的评分函数。这允许鉴定在属于共表达或同源基因的一组给定启动子序列中倾向于优先发生在彼此附近的结合位点集。我们在源自肌肉特异性基因的数据集上对我们的方法进行了基准测试，证明我们的方法能够识别在以前的研究中被确定为功能性的模块。
We present a combinatorial method for discovering cis-regulatory modules in promoter sequences. Our approach combines “sliding window” approaches with a scoring function based on the so-called Tanimoto score. This allows to identify sets of binding sites that tend to occur preferentially in the vicinity of each other in a given set of promoter sequences belonging to co-expressed or orthologous genes. We benchmark our method on a data set derived from muscle-specific genes, demonstrating that our approach is capable of identifying modules that were identified as functional in previous studies.