title: Mining putative regulatory elements in promoter regions of Saccharomyces cerevisiae.
abstract: The availability of genome-wide gene expression data provides a unique set of genes from which we can decipher the mechanisms underlying the common transcriptional response. Transcription factors, which can bind to specific DNA sites, cooperatively regulate the transcription of genes. This study attempts to mine putative binding sites to investigate how combinations of the sites predicted from known sites and over-represented repetitive elements are distributed in the promoter regions of groups of functionally related genes. The over-represented repetitive elements appearing in the associations are possible transcription factor binding sites. The deduced association rules would facilitate to predict putative regulatory elements and to identify genes which are potentially co-regulated by the putative regulatory elements. Our proposed approach is applied to Saccharomyces cerevisiae and the promoter regions of yeast ORFs.
authors.affiliation: Department of Life Science, National Central University, Taiwan. horng@db.csie.ncu.edu.tw
authors.forename: Jorng-Tzong
authors.initials: JT
authors.lastname: Horng
authors.forename: Hsien-Da
authors.initials: HD
authors.lastname: Huang
authors.forename: Shir-Ly
authors.initials: SL
authors.lastname: Huang
authors.forename: Ueng-Cheng
authors.initials: UC
authors.lastname: Yan
authors.forename: Yu-Chang
authors.initials: YC
authors.lastname: Chang
mesh_terms: D001483:Base Sequence; D004271:DNA, Fungal; D016681:Genome, Fungal; D016366:Open Reading Frames; D011401:Promoter Regions, Genetic; D012045:Regulatory Sequences, Nucleic Acid; D012441:Saccharomyces cerevisiae / Q000235:genetics*
chemical_list: D004271:DNA, Fungal