Applying molecular communication theory to estimate information loss in cell signal transduction: an approach based on cancer transcriptomics
Applying molecular communication theory to estimate information loss in cell signal transduction: an approach based on cancer transcriptomics
复制标题
应用分子通讯理论估计细胞信号转导中的信息丢失：一种基于癌症转录组学的方法
DOI：
10.1145/3233188.3233202
复制
发表时间：
2018
期刊：
影响因子：
--
通讯作者：
Pierobon, Massimiliano
中科院分区：
文献类型：
--
作者：
Sakkaff, Zahmeeth;Immaneni, Aditya;Pierobon, Massimiliano
信号转导通路是嵌入生物细胞中的化学通讯通道，它们从环境中传播信息来调节细胞的生长和增殖等行为。这些渠道的正常功能中断，主要是由于潜在遗传密码的突变，可能是癌症等疾病的主要原因。针对细胞组织样本中遗传密码表达的公开数据日益增多(如转录组学)和新兴的分子通信领域，基于实验数据挖掘和通信理论，提出了一种新的数据驱动方法。在癌症的背景下，这种方法是对这些通路的现有计算模型的替代，这些计算模型往往似乎过度简化了潜在机制的复杂性。相反，这里推导出一种计算方法，仅基于转录数据来估计健康细胞和疾病细胞中信号转导通路的信息传播性能的差异。这种方法建立在通过该途径的信息流及其与潜在DNA基因表达的相关性的分子通信抽象的基础上。给出了基于肾癌JAK-STAT通路的案例研究的数值结果，并与现有数据中通路基因突变的发生相关联。
Signal transduction pathways are chemical communication channels embedded in biological cells, and they propagate information from the environment to regulate cell growth and proliferation, among other cell's behaviors. Disruptions in the normal functionalities of these channels, mostly resulting from mutations in the underlying genetic code, can be leading causes of diseases, such as cancer. Motivated by the increasing availability of public data on genetic code expression in cell tissue samples,i.e.,transcriptomics, and the emerging field of molecular communication, a novel data-driven approach based on experimental data mining and communication theory is proposed in this paper. This approach is an alternative to existing computational models of these pathways in the context of cancer, which often appear to oversimplify the complexity of the underlying mechanisms. In contrast, a computational methodology is here derived to estimate the difference in information propagation performance of signal transduction pathways in healthy and diseased cells, solely based on transcriptomic data. This methodology is built upon a molecular communication abstraction of information flow through the pathway and its correlation with the expression of the underlying DNA genes. Numerical results are presented for a case study based on the JAK-STAT pathway in kidney cancer, and correlated with the occurrence of pathway gene mutations in the available data.
影响因子：
--
作者：
Habibi I;Emamian ES;Abdi A
通讯作者：
Abdi A
DOI：
10.1186/2043-9113-2-1
发表时间：
2012-01-13
期刊：
Journal of clinical bioinformatics
影响因子：
--
作者：
Yeh SH;Yeh HY;Soo VW
通讯作者：
Soo VW