The Fidelity of Annealing-Ligation: A Theoretical Analysis
The Fidelity of Annealing-Ligation: A Theoretical Analysis
复制标题
退火连接的保真度：理论分析
DOI：
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发表时间：
2000
期刊：
影响因子：
--
通讯作者：
R. Deaton
中科院分区：
文献类型：
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作者：
J. A. Rose;R. Deaton
了解通过连续生物步骤传播错误的本质对于模拟计算 DNA 架构的整体保真度至关重要。在这项工作中，在简单的统计热力学模型的框架内，在零解离的极限下讨论了化合物生物步骤退火-连接的保真度。为简单起见，假设 DNA 连接酶具有理想的不忠实性，其错误行为被视为真实 DNA 连接酶的错误行为。退火-连接保真度的推导表达式表明错误耦合很强并且依赖于序列。假设双链体形成的交错拉链模型，还针对阿德曼图的各种编码计算了退火和退火连接保真度的估计。结果表明，除了纯粹基于序列比较的信息之外，还需要包括有关特定自由能和/或可访问双链态占据的信息。
Understanding the nature of the error propagation through successive biosteps is critical to modeling the overall fidelity of computational DNA architectures. In this work, the fidelity of the compound biostep annealing-ligation is discussed in the limit of zero dissociation, within the framework of a simple statistical thermodynamic model. For simplicity, a DNA ligase of ideal infidelity is assumed, with its error behavior taken as bounding that of real DNA ligases. The derived expression for the fidelity of annealing-ligation indicates that the error coupling is both strong and dependent on sequence. Estimates of the fidelities of annealing and annealing-ligation have also been calculated for various encodings of Adleman's graph, assuming a staggered zipper model of duplex formation. Results indicate the necessity of including information regarding the specific free energies and/or occupancies of accessible duplex states, in addition to information based purely on sequence comparison.
来自酿酒酵母的 DNA 连接酶 I：CDC9 基因产物的物理和生化特征。
影响因子：
2.9
作者：
Tomkinson,AE;Tappe,NJ;Friedberg,EC
通讯作者：
Friedberg,EC