Paper Info
Title
A Computational Approach to Discover Differential Cooperation of Regulartory Sites in Functionally Related Genes in Yeast Genome
Abstract
The availability of genome-wide gene expression data provides a unique set of genes from which to decipher the mechanisms underlying the common transcriptional response. A set of transcription factors which bind to target sites regulate the gene transcription cooperatively. This motivates us to discover the site associations of known transcription factor binding sites and certain repetitive elements. Those over-represented repetitive elements in the promoter regions of functionally related genes are predicted as putative regulatory elements. The study is to analyze how the differential site associations of the known regulatory sites and putative regulatory elements are distributed in the promoter regions of groups of functionally related genes. The functional-specific site associations are discovered by a statistical approach and the over-represented repetitive elements involving in the site associations are possible to be transcription factor binding sites. The site associations facilitate to predict functional-specific putative regulatory elements and to identify genes potentially co-regulated by the putative regulatory elements. Our proposed approach is applied to Saccharomyces cerevisiae and the promoter regions of yeast ORFs.
Year
Venue
Keywords
2004
JOURNAL OF INFORMATION SCIENCE AND ENGINEERING
regulatory site,transcription factor,yeast,data mining,promoter
Field
DocType
Volume
Promoter,ChIA-PET,DNA binding site,Trans-regulatory element,Computer science,Response element,Computational biology,Bioinformatics,Regulatory site,Cis-regulatory module,Transcription factor,Distributed computing
Journal
20
Issue
ISSN
Citations 
6
1016-2364
0
PageRank 
References 
Authors
0.34
9
6
Name
Order
Citations
PageRank
Hsien-Da Huang183563.83
Jorng-Tzong Horng254167.78
Chia-Hui Chang3106264.41
tsungshan tsou4112.94
Jing-yue Hong500.34
Baw-Jhiune Liu619338.12