聚类破译者：在DNA序列中寻找基序的密集聚类
Cluster-Buster: Finding dense clusters of motifs in DNA sequences.
作者信息
Frith Martin C, Li Michael C, Weng Zhiping
机构信息
Bioinformatics Program, Boston University, 44 Cummington Street, Boston, MA 02215, USA.
出版信息
Nucleic Acids Res. 2003 Jul 1;31(13):3666-8. doi: 10.1093/nar/gkg540.
Abstract
The signals that determine activation and repression of specific genes in response to appropriate stimuli are one of the most important, but least understood, types of information encoded in genomic DNA. The nucleotide sequence patterns, or motifs, preferentially bound by various transcription factors have been collected in databases. However, these motifs appear to be individually too short and degenerate to enable detection of functional enhancer and silencer elements within a large genome. Several groups have proposed that dense clusters of motifs may diagnose regulatory regions more accurately. Cluster-Buster is the third incarnation of our software for finding clusters of pre-specified motifs in DNA sequences. We offer a Cluster-Buster web server at http://zlab.bu.edu/cluster-buster/.
摘要
在响应适当刺激时决定特定基因激活和抑制的信号，是基因组DNA中编码的最重要但也是了解最少的信息类型之一。各种转录因子优先结合的核苷酸序列模式或基序已收集在数据库中。然而，这些基序单独看来似乎太短且具有简并性，无法在大基因组中检测到功能性增强子和沉默子元件。几个研究小组提出，基序的密集簇可能更准确地诊断调控区域。Cluster-Buster是我们用于在DNA序列中查找预先指定基序簇的软件的第三个版本。我们在http://zlab.bu.edu/cluster-buster/ 提供了一个Cluster-Buster网络服务器。
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