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Modeling the Dynamics of Eukaryotic DNA Synthesis in Remembrance of Tunde Ogunnaike.纪念通德·奥贡奈克，模拟真核生物DNA合成的动力学
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Stochasticity of replication forks' speeds plays a key role in the dynamics of DNA replication.复制叉速度的随机性在 DNA 复制动力学中起着关键作用。
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本文引用的文献

1
Modeling genome-wide replication kinetics reveals a mechanism for regulation of replication timing.对全基因组复制动力学的建模揭示了调控复制时间的机制。
Mol Syst Biol. 2010 Aug 24;6:404. doi: 10.1038/msb.2010.61.
2
Genome-wide estimation of firing efficiencies of origins of DNA replication from time-course copy number variation data.基于时间进程拷贝数变异数据的全基因组复制起始点点火效率估计。
BMC Bioinformatics. 2010 May 13;11:247. doi: 10.1186/1471-2105-11-247.
3
Mathematical modelling of whole chromosome replication.全染色体复制的数学建模
Nucleic Acids Res. 2010 Sep;38(17):5623-33. doi: 10.1093/nar/gkq343. Epub 2010 May 10.
4
GINS motion reveals replication fork progression is remarkably uniform throughout the yeast genome.GINS 运动揭示了复制叉在酵母基因组中的进展非常均匀。
Mol Syst Biol. 2010;6:353. doi: 10.1038/msb.2010.8. Epub 2010 Mar 9.
5
Mathematical modelling of eukaryotic DNA replication.真核生物 DNA 复制的数学建模。
Chromosome Res. 2010 Jan;18(1):147-61. doi: 10.1007/s10577-009-9092-4.
6
Defining replication origin efficiency using DNA fiber assays.使用 DNA 纤维分析法定量复制起始效率。
Chromosome Res. 2010 Jan;18(1):91-102. doi: 10.1007/s10577-009-9098-y.
7
A model for the spatiotemporal organization of DNA replication in Saccharomyces cerevisiae.酿酒酵母中DNA复制的时空组织模型。
Mol Genet Genomics. 2009 Jul;282(1):25-35. doi: 10.1007/s00438-009-0443-9. Epub 2009 Mar 22.
8
Replication licensing and cancer--a fatal entanglement?复制许可与癌症——致命的纠缠？
Nat Rev Cancer. 2008 Oct;8(10):799-806. doi: 10.1038/nrc2500. Epub 2008 Aug 29.
9
Stochastic hybrid modeling of DNA replication across a complete genome.完整基因组DNA复制的随机混合建模
Proc Natl Acad Sci U S A. 2008 Aug 26;105(34):12295-300. doi: 10.1073/pnas.0805549105. Epub 2008 Aug 19.
10
OriDB: a DNA replication origin database.OriDB：一个DNA复制起点数据库。
Nucleic Acids Res. 2007 Jan;35(Database issue):D40-6. doi: 10.1093/nar/gkl758. Epub 2006 Oct 25.

酵母中 DNA 复制的动力学。

Dynamics of DNA replication in yeast.

机构信息

Centre for Genetics and Genomics, University of Nottingham, United Kingdom.

出版信息

Phys Rev Lett. 2011 Aug 5;107(6):068103. doi: 10.1103/PhysRevLett.107.068103. Epub 2011 Aug 4.

DOI:10.1103/PhysRevLett.107.068103
PMID:21902372
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC3671325/
Abstract

We present a mathematical model for the spatial dynamics of DNA replication. Using this model we determine the probability distribution for the time at which each chromosomal position is replicated. From this we show, contrary to previous reports, that mean replication time curves cannot be used to directly determine origin parameters. We demonstrate that the stochastic nature of replication dynamics leaves a clear signature in experimentally measured population average data, and we show that the width of the activation time probability distribution can be inferred from this data. Our results compare favorably with experimental measurements in Saccharomyces cerevisae.

摘要

我们提出了一个 DNA 复制的空间动力学数学模型。利用这个模型，我们确定了每个染色体位置复制的时间概率分布。由此我们表明，与之前的报告相反，平均复制时间曲线不能直接用于确定起始点参数。我们证明了复制动力学的随机性在实验测量的群体平均数据中留下了明显的特征，并且我们表明可以从这些数据推断出激活时间概率分布的宽度。我们的结果与酿酒酵母的实验测量结果相比具有优势。