Recognition of DNase I hypersensitive sites in multiple cell lines
by Wei Chen, Liaofu Luo, Lirong Zhang, Hao Lin
International Journal of Bioinformatics Research and Applications (IJBRA), Vol. 5, No. 4, 2009

Abstract: DNase I hypersensitive sites (DHSs) associate with a wide variety of functional genomic elements. Successful prediction of DHSs in computational models would dramatically accelerate the annotation of the human genome. In this study, a method of Increment of Diversity with Quadratic Discriminant analysis (IDQD) is presented for DHSs prediction in K562, CD4⁺ T, Hela and GM06990 cell lines. The average accuracies of 10-fold cross-validation test are 98.52%, 96.50%, 99.25% and 97.58%, respectively, and the mean areas under ROC curves (auROC) are all greater than 0.90. The prediction results indicate that the IDQD method is an effective tool for DHSs recognition.

Online publication date: Tue, 28-Jul-2009

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