A combined statistical model for multiple motifs search
文献类型：期刊论文
| 作者 | Gao LF(高丽锋); Liu X(刘鑫) ; Guan S(官山)
|
| 刊名 | Chinese Physics B
 |
| 出版日期 | 2008 |
| 卷号 | 17期号:12页码:4396 |
| 通讯作者邮箱 | dhq2gs@yahoo.com.cn |
| 关键词 | transcription factor binding sites motif position weight matrix |
| ISSN号 | 1674-1056 |
| 通讯作者 | Guan S |
| 合作状况 | 其它 |
| 中文摘要 | Transcription factor binding sites (TFBS) play key roles in genebior 6.8 wavelet expression and regulation. They are short sequence segments with de¯nite structure and can be recognized by the corresponding transcription factors correctly. From the viewpoint of statistics, the candidates of TFBS should be quite di®erent from the segments that are randomly combined together by nucleotide. This paper proposes a combined statistical model for ¯nding over- represented short sequence segments in di®erent kinds of data set. While the over-represented short sequence segment is described by position weight matrix, the nucleotide distribution at most sites of the segment should be far from the background nucleotide distribution. The central idea of this approach is to search for such kind of signals. This algorithm is tested on 3 data sets, including binding sites data set of cyclic AMP receptor protein in E.coli, PlantProm DB which is a non-redundant collection of proximal promoter sequences from di®erent species, collection of the intergenic sequences of the whole genome of E.Coli. Even though the complexity of these three data sets is quite di®erent, the results show that this model is rather general and sensible. |
| 学科主题 | 生物力学 |
| 关键词[WOS] | FACTOR-BINDING SITES; EM ALGORITHM; IDENTIFICATION; GENOMES; SEQUENCES; ALIGNMENT |
| 收录类别 | SCI ; CSCD |
| 语种 | 英语 |
| CSCD记录号 | CSCD:3437045 |
| WOS记录号 | WOS:000262494500011 |
| 公开日期 | 2010-05-12 |
| 源URL | [http://dspace.imech.ac.cn/handle/311007/33079]  |
| 专题 | 力学研究所_力学所知识产出(1956-2008) |
| 推荐引用方式 GB/T 7714 | Gao LF,Liu X,Guan S. A combined statistical model for multiple motifs search[J]. Chinese Physics B,2008,17(12):4396. |
| APA | Gao LF,Liu X,&Guan S.(2008).A combined statistical model for multiple motifs search.Chinese Physics B,17(12),4396. |
| MLA | Gao LF,et al."A combined statistical model for multiple motifs search".Chinese Physics B 17.12(2008):4396. |
入库方式： OAI收割
来源：力学研究所
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