Modeling Transport Regulation in Gene Regulatory Networks
Modeling Transport Regulation in Gene Regulatory Networks
复制标题
DOI：
10.1007/s11538-022-01035-1
复制
发表时间：
2022-08-01
影响因子：
3.5
通讯作者：
Gedeon, Tomas
中科院分区：
文献类型：
--
作者：
Fox, Erika;Cummins, Bree;Gedeon, Tomas
基因调控网络概括了一组基因和调控基因产物之间的相互作用。这些相互作用包括转录调节、蛋白质活性调节和蛋白质在细胞区室之间的转运调节。DSGRN是一种建立在离散时间布尔模型和连续时间交换系统模型基础上的网络建模方法。当所有的相互作用都是转录时，DSGRN使用组合近似来描述与网络结构兼容的整个动态范围。在这里，我们提出了一个扩展的DGSRN方法跨室之间的边界，如细胞膜的运输调节。我们通过搜索p53-Mdm 2网络模型来说明我们的方法，该模型有可能允许两个实验观察到的不同的稳定周期循环。
A gene regulatory network summarizes the interactions between a set of genes and regulatory gene products. These interactions include transcriptional regulation, protein activity regulation, and regulation of the transport of proteins between cellular compartments. DSGRN is a network modeling approach that builds on traditions of discrete-time Boolean models and continuous-time switching system models. When all interactions are transcriptional, DSGRN uses a combinatorial approximation to describe the entire range of dynamics that is compatible with network structure. Here we present an extension of the DGSRN approach to transport regulation across a boundary between compartments, such as a cellular membrane. We illustrate our approach by searching a model of the p53-Mdm2 network for the potential to admit two experimentally observed distinct stable periodic cycles.