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Prediction of replication origins by calculating DNA structural properties
Author(s) -
Chen Wei,
Feng Pengmian,
Lin Hao
Publication year - 2012
Publication title -
febs letters
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.593
H-Index - 257
eISSN - 1873-3468
pISSN - 0014-5793
DOI - 10.1016/j.febslet.2012.02.034
Subject(s) - dna replication , cleavage (geology) , dna , replication (statistics) , jackknife resampling , saccharomyces cerevisiae , linker , computational biology , computer science , biology , genetics , yeast , mathematics , statistics , virology , paleontology , estimator , fracture (geology) , operating system
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 structural 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.