Predicting regulatory elements in repetitive sequences using transcription factor binding sites

Jorng Tzong Horng, Wen Fu Cho

研究成果: 雜誌貢獻期刊論文同行評審

4 引文 斯高帕斯(Scopus)


Repeat sequences are the most abundant ones in the extragenic region of genomes. Biologists have already found a large number of regulatory elements in this region. These elements may profoundly impact the chromatin structure formation in nucleus and also contain important clues in genetic evolution and phylogenic study. This study attempts to mine rules on how combinations of individual binding sites are distributed repeat sequences. The association rules mined would facilitate efforts to identify gene classes regulated by similar mechanisms and accurately predict regulatory elements. Herein, the combinations of transcription factor binding sites in the repeat sequences are obtained and, then, data mining techniques are applied to mine the association rules from the combinations of binding sites. In addition, the discovered associations are further pruned to remove those insignificant associations and obtain a set of discovered associations. Finally, the discovered association rules are used to partially classify the repeat sequences in our repeat database. Experiments on several genomes include C. elegans, human chromosome 22 and yeast.

頁(從 - 到)202-212
期刊Electronic Journal of Biotechnology
出版狀態已出版 - 15 12月 2000


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