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Please use this identifier to cite or link to this item: http://ntour.ntou.edu.tw:8080/ir/handle/987654321/51282

Title: Method for identifying transcription factor binding sites in yeast
Authors: Huai-Kuang Tsai
Grace Tzu-Wei Huang
Meng-Yuan Chou
Henry Horng-Shing Lu
Wen-Hsiung Li
Contributors: 國立臺灣海洋大學:資訊工程學系
Date: 2006-07
Issue Date: 2018-11-21T07:46:22Z
Publisher: Bioinformatics
Abstract: Abstract: Motivation: Identifying transcription factor binding sites (TFBSs) is helpful for understanding the mechanism of transcriptional regulation. The abundance and the diversity of genomic data provide an excellent opportunity for identifying TFBSs. Developing methods to integrate various types of data has become a major trend in this pursuit.

Results: We develop a TFBS identification method, TFBSfinder, which utilizes several data sources, including DNA sequences, phylogenetic information, microarray data and ChIP-chip data. For a TF, TFBSfinder rigorously selects a set of reliable target genes and a set of non-target genes (as a background set) to find overrepresented and conserved motifs in target genes. A new metric for measuring the degree of conservation at a binding site across species and methods for clustering motifs and for inferring position weight matrices are proposed. For synthetic data and yeast cell cycle TFs, TFBSfinder identifies motifs that are highly similar to known consensuses. Moreover, TFBSfinder outperforms well-known methods.
Relation: 22(14-15) pp.1675–1681
URI: http://ntour.ntou.edu.tw:8080/ir/handle/987654321/51282
Appears in Collections:[資訊工程學系] 期刊論文

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