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Prediction and experimental validation of novel STAT3 target genes in human cancer cells

Title
Prediction and experimental validation of novel STAT3 target genes in human cancer cells
Authors
Oh, YMKim, JKChoi, YChoi, SYoo, JY
POSTECH Authors
Yoo, JY
Date Issued
Sep-2009
Publisher
PLoS
Abstract
The comprehensive identification of functional transcription factor binding sites (TFBSs) is an important step in understanding complex transcriptional regulatory networks. This study presents a motif-based comparative approach, STAT-Finder, for identifying functional DNA binding sites of STAT3 transcription factor. STAT-Finder combines STAT-Scanner, which was designed to predict functional STAT TFBSs with improved sensitivity, and a motif-based alignment to minimize false positive prediction rates. Using two reference sets containing promoter sequences of known STAT3 target genes, STAT-Finder identified functional STAT3 TFBSs with enhanced prediction efficiency and sensitivity relative to other conventional TFBS prediction tools. In addition, STAT-Finder identified novel STAT3 target genes among a group of genes that are over-expressed in human cancer cells. The binding of STAT3 to the predicted TFBSs was also experimentally confirmed through chromatin immunoprecipitation. Our proposed method provides a systematic approach to the prediction of functional TFBSs that can be applied to other TFs.
URI
http://oasis.postech.ac.kr/handle/2014.oak/26422
ISSN
1932-6203
Article Type
Article
Citation
PLOS ONE, vol. 4, no. 9, 2009-09
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 YOO, JOO YEON
Dept of Life Sciences
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