Prediction and experimental validation of novel STAT3 target genes in human cancer cells
SCIE
SCOPUS
- Title
- Prediction and experimental validation of novel STAT3 target genes in human cancer cells
- Authors
- Oh, YM; Kim, JK; Choi, Y; Choi, S; Yoo, JY
- Date Issued
- 2009-09
- 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
- https://oasis.postech.ac.kr/handle/2014.oak/26422
- DOI
- 10.1371/journal.pone.0006911
- ISSN
- 1932-6203
- Article Type
- Article
- Citation
- PLOS ONE, vol. 4, no. 9, 2009-09
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