National Taiwan Ocean University Institutional Repository:Item 987654321/46767
English  |  正體中文  |  简体中文  |  Items with full text/Total items : 27287/39131
Visitors : 2444722      Online Users : 35
RC Version 4.0 © Powered By DSPACE, MIT. Enhanced by NTU Library IR team.
Scope Adv. Search

Please use this identifier to cite or link to this item:

Title: De novo motif discovery facilitates identification of interactions between transcription factors in Saccharomyces cerevisiae
Authors: Mei-Ju May Chen
Lih-Ching Chou
Tsung-Ting Hsieh
Ding-Dar Lee
Kai-Wei Liu
Chi-Yuan Yu
Yen-Jen Oyang
Huai-Kuang Tsai
Chien-Yu Chen
Contributors: 國立臺灣海洋大學:資訊工程學系
NTOU:Department of Computer Science and Engineering
Date: 2012-01
Issue Date: 2018-06-04T08:25:27Z
Publisher: Bioinformatics
Abstract: Abstract:
Motivation: Gene regulation involves complicated mechanisms such as cooperativity between a set of transcription factors (TFs). Previous studies have used target genes shared by two TFs as a clue to infer TF–TF interactions. However, this task remains challenging because the target genes with low binding affinity are frequently omitted by experimental data, especially when a single strict threshold is employed. This article aims at improving the accuracy of inferring TF–TF interactions by incorporating motif discovery as a fundamental step when detecting overlapping targets of TFs based on ChIP-chip data.

Results: The proposed method, simTFBS, outperforms three naïve methods that adopt fixed thresholds when inferring TF–TF interactions based on ChIP-chip data. In addition, simTFBS is compared with two advanced methods and demonstrates its advantages in predicting TF–TF interactions. By comparing simTFBS with predictions based on the set of available annotated yeast TF binding motifs, we demonstrate that the good performance of simTFBS is indeed coming from the additional motifs found by the proposed procedures.;

Supplementary information:Supplementary data are available at Bioinformatics online.
Relation: 28(5), pp.701-708
Appears in Collections:[Department of Computer Science and Engineering] Periodical Articles

Files in This Item:

File Description SizeFormat

All items in NTOUR are protected by copyright, with all rights reserved.


著作權政策宣告: 本網站之內容為國立臺灣海洋大學所收錄之機構典藏,無償提供學術研究與公眾教育等公益性使用,請合理使用本網站之內容,以尊重著作權人之權益。
網站維護: 海大圖資處 圖書系統組
DSpace Software Copyright © 2002-2004  MIT &  Hewlett-Packard  /   Enhanced by   NTU Library IR team Copyright ©   - Feedback