期刊
NUCLEIC ACIDS RESEARCH
卷 34, 期 -, 页码 W243-W248出版社
OXFORD UNIV PRESS
DOI: 10.1093/nar/gkl298
关键词
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资金
- NCRR NIH HHS [P20 RR016475] Funding Source: Medline
- NIGMS NIH HHS [P20 GM103418] Funding Source: Medline
BindN (http://bioinformatics.ksu.edu/bindn/) takes an amino acid sequence as input and predicts potential DNA or RNA-binding residues with support vector machines (SVMs). Protein datasets with known DNA or RNA-binding residues were selected from the Protein Data Bank (PDB), and SVM models were constructed using data instances encoded with three sequence features, including the side chain pK(a) value, hydrophobicity index and molecular mass of an amino acid. The results suggest that DNA-binding residues can be predicted at 69.40% sensitivity and 70.47% specificity, while prediction of RNA-binding residues achieves 66.28% sensitivity and 69.84% specificity. When compared with previous studies, the SVM models appear to be more accurate and more efficient for online predictions. BindN provides a useful tool for understanding the function of DNA and RNA-binding proteins based on primary sequence data.
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