Using noise to probe and characterize gene circuits
Using noise to probe and characterize gene circuits
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DOI：
10.1073/pnas.0804829105
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发表时间：
2008-08-05
影响因子：
11.1
通讯作者：
Simpson, Michael L.
中科院分区：
文献类型：
--
作者：
Cox, Chris D.;McCollum, James M.;Simpson, Michael L.
分子种类的单细胞群体中的随机波动（或“噪声”）是由潜在基因回路的结构和生物动力学速率所决定的。噪声的结构由其自相关函数来概括。在本文中，我们引入噪声调控向量作为一个通用框架，用于从基因回路的噪声自相关函数推断其结构和生物动力学速率。尽管以前的大多数研究主要关注噪声的幅度成分（由零滞后自相关函数给出），但我们的方法也考虑了相关成分，它编码了有关回路的额外信息。对各种基因回路的理论分析和模拟表明，噪声调控向量是回路组成的特征。尽管一个特定的噪声调控向量并不能唯一地映射到一个单一的潜在回路，但它确实提出了可能的候选回路，同时排除了其他回路，从而证明了噪声在基因回路分析中的证明价值。
Stochastic fluctuations (or "noise") in the single-cell populations of molecular species are shaped by the structure and biokinetic rates of the underlying gene circuit. The structure of the noise is summarized by its autocorrelation function. In this article, we introduce the noise regulatory vector as a generalized framework for making inferences concerning the structure and biokinetic rates of a gene circuit from its noise autocorrelation function. Although most previous studies have focused primarily on the magnitude component of the noise (given by the zero-lag autocorrelation function), our approach also considers the correlation component, which encodes additional information concerning the circuit. Theoretical analyses and simulations of various gene circuits show that the noise regulatory vector is characteristic of the composition of the circuit. Although a particular noise regulatory vector does not map uniquely to a single underlying circuit, it does suggest possible candidate circuits, while excluding others, thereby demonstrating the probative value of noise in gene circuit analysis.