https://scholars.lib.ntu.edu.tw/handle/123456789/414373
標題: | ProteDNA: A sequence-based predictor of sequence-specific DNA-binding residues in transcription factors | 作者: | Chu W.-Y. Huang Y.-F. Huang C.-C. Cheng Y.-S. Huang C.-K. CHIEN-KANG HUANG YEN-JEN OYANG |
公開日期: | 2009 | 卷: | 37 | 期: | SUPPL. 2 | 起(迄)頁: | W396-W401 | 來源出版物: | Nucleic Acids Research | 摘要: | This article presents the design of a sequence-based predictor named ProteDNA for identifying the sequence-specific binding residues in a transcription factor (TF). Concerning protein-DNA interactions, there are two types of binding mechanisms involved, namely sequence-specific binding and nonspecific binding. Sequence-specific bindings occur between protein sidechains and nucleotide bases and correspond to sequence-specific recognition of genes. Therefore, sequence-specific bindings are essential for correct gene regulation. In this respect, ProteDNA is distinctive since it has been designed to identify sequence-specific binding residues. In order to accommodate users with different application needs, ProteDNA has been designed to operate under two modes, namely, the high-precision mode and the balanced mode. According to the experiments reported in this article, under the high-precision mode, ProteDNA has been able to deliver precision of 82.3%, specificity of 99.3%, sensitivity of 49.8% and accuracy of 96.5%. Meanwhile, under the balanced mode, ProteDNA has been able to deliver precision of 60.8%, specificity of 97.6%, sensitivity of 60.7% and accuracy of 95.4%. ProteDNA is available at the following websites: http://protedna.csbb.ntu.edu.tw/ http://protedna.csbb.ntu.edu.tw/ http://bio222.esoe.ntu.edu.tw/ProteDNA. |
URI: | https://scholars.lib.ntu.edu.tw/handle/123456789/414373 | ISSN: | 03051048 | DOI: | 10.1093/nar/gkp449 https://www.scopus.com/inward/record.uri?eid=2-s2.0-67849090551&doi=10.1093%2fnar%2fgkp449&partnerID=40&md5=7f509a4cfc7134eedbc8609709f1dfe1 |
顯示於: | 植物科學研究所 |
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gkp449.pdf | 1.69 MB | Adobe PDF | 檢視/開啟 |
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