Prediction of replication origins by calculating DNA structural properties

Wei Chen, Pengmian Feng, Hao Lin
2012 FEBS Letters  
Edited by Gianni Cesareni Keywords: Origin of replication Bendability Cleavage intensity Support vector machine a b s t r a c t In this study, we introduced two DNA structural characteristics, namely, bendability and hydroxyl radical cleavage intensity to analyze origin of replication (ORI) in the Saccharomyces cerevisiae genome. We found that both DNA bendability and cleavage intensity in core replication regions were significantly lower than in the linker regions. By using these two DNA
more » ... ural characteristics, we developed a computational model for ORI prediction and evaluated the model in a benchmark dataset. The predictive performance of the jackknife cross-validation indicates that DNA bendability and cleavage intensity have the ability to describe core replication regions and our model is effective in ORI prediction.
doi:10.1016/j.febslet.2012.02.034 pmid:22449982 fatcat:vxxjkr2ez5az7ar3hrze5bvgie