New technologies such as DNA combing have led to the availability of large quantities of data that describe the state of DNA while undergoing replication in S phase. In this chapter, we describe methods used to extract various parameters of replication-fork velocity, origin initiation rate, fork density, numbers of potential and utilized origins-from such data. We first present a version of the technique that applies to "ideal" data. We then show how to deal with, a number of real-world complications, such as the asynchrony of starting times of a population of cells, the finite length of fragments used in the analysis, and the finite amount of DNA in a chromosome. © 2009 Humana Press, a part of Springer Science+Business Media, LLC.
CITATION STYLE
Yang, S. C. H., Gauthier, M. G., & Bechhoefer, J. (2009). Computational methods to study kinetics of DNA replication. Methods in Molecular Biology, 521, 555–573. https://doi.org/10.1007/978-1-60327-815-7_32
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